mouse.time.mpse |
(Data) An example data |
MPSE |
Construct a MPSE object |
MPSE-accessors |
MPSE accessors |
MPSE-class |
MPSE class |
mp_adonis |
Permutational Multivariate Analysis of Variance Using Distance Matrices for MPSE or tbl_mpse object |
mp_adonis,grouped_df_mpse |
Permutational Multivariate Analysis of Variance Using Distance Matrices for MPSE or tbl_mpse object |
mp_adonis,MPSE |
Permutational Multivariate Analysis of Variance Using Distance Matrices for MPSE or tbl_mpse object |
mp_adonis,tbl_mpse |
Permutational Multivariate Analysis of Variance Using Distance Matrices for MPSE or tbl_mpse object |
mp_adonis-method |
Permutational Multivariate Analysis of Variance Using Distance Matrices for MPSE or tbl_mpse object |
mp_aggregate |
aggregate the assays with the specific group of sample and fun. |
mp_aggregate,MPSE |
aggregate the assays with the specific group of sample and fun. |
mp_aggregate-method |
aggregate the assays with the specific group of sample and fun. |
mp_aggregate_clade |
calculate the mean/median (relative) abundance of internal nodes according to their children tips. |
mp_aggregate_clade,grouped_df_mpse |
calculate the mean/median (relative) abundance of internal nodes according to their children tips. |
mp_aggregate_clade,MPSE |
calculate the mean/median (relative) abundance of internal nodes according to their children tips. |
mp_aggregate_clade,tbl_mpse |
calculate the mean/median (relative) abundance of internal nodes according to their children tips. |
mp_aggregate_clade-method |
calculate the mean/median (relative) abundance of internal nodes according to their children tips. |
mp_anosim |
Analysis of Similarities (ANOSIM) with MPSE or tbl_mpse object |
mp_anosim,grouped_df_mpse |
Analysis of Similarities (ANOSIM) with MPSE or tbl_mpse object |
mp_anosim,MPSE |
Analysis of Similarities (ANOSIM) with MPSE or tbl_mpse object |
mp_anosim,tbl_mpse |
Analysis of Similarities (ANOSIM) with MPSE or tbl_mpse object |
mp_anosim-method |
Analysis of Similarities (ANOSIM) with MPSE or tbl_mpse object |
mp_balance_clade |
Calculating the balance score of internal nodes (clade) according to the geometric.mean/mean/median abundance of their binary children tips. |
mp_balance_clade,grouped_df_mpse |
Calculating the balance score of internal nodes (clade) according to the geometric.mean/mean/median abundance of their binary children tips. |
mp_balance_clade,MPSE |
Calculating the balance score of internal nodes (clade) according to the geometric.mean/mean/median abundance of their binary children tips. |
mp_balance_clade,tbl_mpse |
Calculating the balance score of internal nodes (clade) according to the geometric.mean/mean/median abundance of their binary children tips. |
mp_balance_clade-method |
Calculating the balance score of internal nodes (clade) according to the geometric.mean/mean/median abundance of their binary children tips. |
mp_cal_abundance |
Calculate the (relative) abundance of each taxonomy class for each sample or group. |
mp_cal_abundance,grouped_df_mpse |
Calculate the (relative) abundance of each taxonomy class for each sample or group. |
mp_cal_abundance,MPSE |
Calculate the (relative) abundance of each taxonomy class for each sample or group. |
mp_cal_abundance,tbl_mpse |
Calculate the (relative) abundance of each taxonomy class for each sample or group. |
mp_cal_abundance-method |
Calculate the (relative) abundance of each taxonomy class for each sample or group. |
mp_cal_alpha |
calculate the alpha index with MPSE or tbl_mpse |
mp_cal_alpha,grouped_df_mpse |
calculate the alpha index with MPSE or tbl_mpse |
mp_cal_alpha,MPSE |
calculate the alpha index with MPSE or tbl_mpse |
mp_cal_alpha,tbl_mpse |
calculate the alpha index with MPSE or tbl_mpse |
mp_cal_alpha-method |
calculate the alpha index with MPSE or tbl_mpse |
mp_cal_cca |
[Partial] [Constrained] Correspondence Analysis with MPSE or tbl_mpse object |
mp_cal_cca,grouped_df_mpse |
[Partial] [Constrained] Correspondence Analysis with MPSE or tbl_mpse object |
mp_cal_cca,MPSE |
[Partial] [Constrained] Correspondence Analysis with MPSE or tbl_mpse object |
mp_cal_cca,tbl_mpse |
[Partial] [Constrained] Correspondence Analysis with MPSE or tbl_mpse object |
mp_cal_cca-method |
[Partial] [Constrained] Correspondence Analysis with MPSE or tbl_mpse object |
mp_cal_clust |
Hierarchical cluster analysis for the samples with MPSE or tbl_mpse object |
mp_cal_clust,grouped_df_mpse |
Hierarchical cluster analysis for the samples with MPSE or tbl_mpse object |
mp_cal_clust,MPSE |
Hierarchical cluster analysis for the samples with MPSE or tbl_mpse object |
mp_cal_clust,tbl_mpse |
Hierarchical cluster analysis for the samples with MPSE or tbl_mpse object |
mp_cal_clust-method |
Hierarchical cluster analysis for the samples with MPSE or tbl_mpse object |
mp_cal_dca |
Detrended Correspondence Analysis with MPSE or tbl_mpse object |
mp_cal_dca,grouped_df_mpse |
Detrended Correspondence Analysis with MPSE or tbl_mpse object |
mp_cal_dca,MPSE |
Detrended Correspondence Analysis with MPSE or tbl_mpse object |
mp_cal_dca,tbl_mpse |
Detrended Correspondence Analysis with MPSE or tbl_mpse object |
mp_cal_dca-method |
Detrended Correspondence Analysis with MPSE or tbl_mpse object |
mp_cal_dist |
Calculate the distances between the samples or features with specified abundance. |
mp_cal_dist,grouped_df_mpse |
Calculate the distances between the samples or features with specified abundance. |
mp_cal_dist,MPSE |
Calculate the distances between the samples or features with specified abundance. |
mp_cal_dist,tbl_mpse |
Calculate the distances between the samples or features with specified abundance. |
mp_cal_dist-method |
Calculate the distances between the samples or features with specified abundance. |
mp_cal_divergence |
calculate the divergence with MPSE or tbl_mpse |
mp_cal_divergence,grouped_df_mpse |
calculate the divergence with MPSE or tbl_mpse |
mp_cal_divergence,MPSE |
calculate the divergence with MPSE or tbl_mpse |
mp_cal_divergence,tbl_mpse |
calculate the divergence with MPSE or tbl_mpse |
mp_cal_divergence-method |
calculate the divergence with MPSE or tbl_mpse |
mp_cal_nmds |
Nonmetric Multidimensional Scaling Analysis with MPSE or tbl_mpse object |
mp_cal_nmds,grouped_df_mpse |
Nonmetric Multidimensional Scaling Analysis with MPSE or tbl_mpse object |
mp_cal_nmds,MPSE |
Nonmetric Multidimensional Scaling Analysis with MPSE or tbl_mpse object |
mp_cal_nmds,tbl_mpse |
Nonmetric Multidimensional Scaling Analysis with MPSE or tbl_mpse object |
mp_cal_nmds-method |
Nonmetric Multidimensional Scaling Analysis with MPSE or tbl_mpse object |
mp_cal_pca |
Principal Components Analysis with MPSE or tbl_mpse object |
mp_cal_pca,grouped_df_mpse |
Principal Components Analysis with MPSE or tbl_mpse object |
mp_cal_pca,MPSE |
Principal Components Analysis with MPSE or tbl_mpse object |
mp_cal_pca,tbl_mpse |
Principal Components Analysis with MPSE or tbl_mpse object |
mp_cal_pca-method |
Principal Components Analysis with MPSE or tbl_mpse object |
mp_cal_pcoa |
Principal Coordinate Analysis with MPSE or tbl_mpse object |
mp_cal_pcoa,grouped_df_mpse |
Principal Coordinate Analysis with MPSE or tbl_mpse object |
mp_cal_pcoa,MPSE |
Principal Coordinate Analysis with MPSE or tbl_mpse object |
mp_cal_pcoa,tbl_mpse |
Principal Coordinate Analysis with MPSE or tbl_mpse object |
mp_cal_pcoa-method |
Principal Coordinate Analysis with MPSE or tbl_mpse object |
mp_cal_pd_metric |
Calculating related phylogenetic alpha metric with MPSE or tbl_mpse object |
mp_cal_pd_metric,grouped_df_mpse |
Calculating related phylogenetic alpha metric with MPSE or tbl_mpse object |
mp_cal_pd_metric,MPSE |
Calculating related phylogenetic alpha metric with MPSE or tbl_mpse object |
mp_cal_pd_metric,tbl_mpse |
Calculating related phylogenetic alpha metric with MPSE or tbl_mpse object |
mp_cal_pd_metric-method |
Calculating related phylogenetic alpha metric with MPSE or tbl_mpse object |
mp_cal_rarecurve |
Calculating the different alpha diversities index with different depth |
mp_cal_rarecurve,grouped_df_mpse |
Calculating the different alpha diversities index with different depth |
mp_cal_rarecurve,MPSE |
Calculating the different alpha diversities index with different depth |
mp_cal_rarecurve,tbl_mpse |
Calculating the different alpha diversities index with different depth |
mp_cal_rarecurve-method |
Calculating the different alpha diversities index with different depth |
mp_cal_rda |
[Partial] [Constrained] Redundancy Analysis with MPSE or tbl_mpse object |
mp_cal_rda,grouped_df_mpse |
[Partial] [Constrained] Redundancy Analysis with MPSE or tbl_mpse object |
mp_cal_rda,MPSE |
[Partial] [Constrained] Redundancy Analysis with MPSE or tbl_mpse object |
mp_cal_rda,tbl_mpse |
[Partial] [Constrained] Redundancy Analysis with MPSE or tbl_mpse object |
mp_cal_rda-method |
[Partial] [Constrained] Redundancy Analysis with MPSE or tbl_mpse object |
mp_cal_upset |
Calculating the samples or groups for each OTU, the result can be visualized by 'ggupset' |
mp_cal_upset,grouped_df_mpse |
Calculating the samples or groups for each OTU, the result can be visualized by 'ggupset' |
mp_cal_upset,MPSE |
Calculating the samples or groups for each OTU, the result can be visualized by 'ggupset' |
mp_cal_upset,tbl_mpse |
Calculating the samples or groups for each OTU, the result can be visualized by 'ggupset' |
mp_cal_upset-method |
Calculating the samples or groups for each OTU, the result can be visualized by 'ggupset' |
mp_cal_venn |
Calculating the OTU for each sample or group, the result can be visualized by 'ggVennDiagram' |
mp_cal_venn,grouped_df_mpse |
Calculating the OTU for each sample or group, the result can be visualized by 'ggVennDiagram' |
mp_cal_venn,MPSE |
Calculating the OTU for each sample or group, the result can be visualized by 'ggVennDiagram' |
mp_cal_venn,tbl_mpse |
Calculating the OTU for each sample or group, the result can be visualized by 'ggVennDiagram' |
mp_cal_venn-method |
Calculating the OTU for each sample or group, the result can be visualized by 'ggVennDiagram' |
mp_decostand |
This Function Provideds Several Standardization Methods for Community Data |
mp_decostand,data.frame |
This Function Provideds Several Standardization Methods for Community Data |
mp_decostand,grouped_df_mpse |
This Function Provideds Several Standardization Methods for Community Data |
mp_decostand,MPSE |
This Function Provideds Several Standardization Methods for Community Data |
mp_decostand,tbl_mpse |
This Function Provideds Several Standardization Methods for Community Data |
mp_decostand-method |
This Function Provideds Several Standardization Methods for Community Data |
mp_diff_analysis |
Differential expression analysis for MPSE or tbl_mpse object |
mp_diff_analysis,grouped_df_mpse |
Differential expression analysis for MPSE or tbl_mpse object |
mp_diff_analysis,MPSE |
Differential expression analysis for MPSE or tbl_mpse object |
mp_diff_analysis,tbl_mpse |
Differential expression analysis for MPSE or tbl_mpse object |
mp_diff_analysis-method |
Differential expression analysis for MPSE or tbl_mpse object |
mp_diff_clade |
Differential internal and tip nodes (clades) analysis for MPSE or tbl_mpse object |
mp_diff_clade,grouped_df_mpse |
Differential internal and tip nodes (clades) analysis for MPSE or tbl_mpse object |
mp_diff_clade,MPSE |
Differential internal and tip nodes (clades) analysis for MPSE or tbl_mpse object |
mp_diff_clade,tbl_mpse |
Differential internal and tip nodes (clades) analysis for MPSE or tbl_mpse object |
mp_diff_clade-method |
Differential internal and tip nodes (clades) analysis for MPSE or tbl_mpse object |
mp_dmn |
Fit Dirichlet-Multinomial models to MPSE or tbl_mpse |
mp_dmn,grouped_df_mpse |
Fit Dirichlet-Multinomial models to MPSE or tbl_mpse |
mp_dmn,MPSE |
Fit Dirichlet-Multinomial models to MPSE or tbl_mpse |
mp_dmn,tbl_mpse |
Fit Dirichlet-Multinomial models to MPSE or tbl_mpse |
mp_dmn-method |
Fit Dirichlet-Multinomial models to MPSE or tbl_mpse |
mp_dmngroup |
Dirichlet-Multinomial generative classifiers to MPSE or tbl_mpse |
mp_dmngroup,grouped_df_mpse |
Dirichlet-Multinomial generative classifiers to MPSE or tbl_mpse |
mp_dmngroup,MPSE |
Dirichlet-Multinomial generative classifiers to MPSE or tbl_mpse |
mp_dmngroup,tbl_mpse |
Dirichlet-Multinomial generative classifiers to MPSE or tbl_mpse |
mp_dmngroup-method |
Dirichlet-Multinomial generative classifiers to MPSE or tbl_mpse |
mp_envfit |
Fits an Environmental Vector or Factor onto an Ordination With MPSE or tbl_mpse Object |
mp_envfit,grouped_df_mpse |
Fits an Environmental Vector or Factor onto an Ordination With MPSE or tbl_mpse Object |
mp_envfit,MPSE |
Fits an Environmental Vector or Factor onto an Ordination With MPSE or tbl_mpse Object |
mp_envfit,tbl_mpse |
Fits an Environmental Vector or Factor onto an Ordination With MPSE or tbl_mpse Object |
mp_envfit-method |
Fits an Environmental Vector or Factor onto an Ordination With MPSE or tbl_mpse Object |
mp_extract_abundance |
Extracting the abundance metric from MPSE or tbl_mpse object |
mp_extract_abundance,grouped_df_mpse |
Extracting the abundance metric from MPSE or tbl_mpse object |
mp_extract_abundance,MPSE |
Extracting the abundance metric from MPSE or tbl_mpse object |
mp_extract_abundance,tbl_mpse |
Extracting the abundance metric from MPSE or tbl_mpse object |
mp_extract_abundance-method |
Extracting the abundance metric from MPSE or tbl_mpse object |
mp_extract_assays |
extract the abundance matrix from MPSE object or tbl_mpse object |
mp_extract_assays,grouped_df_mpse |
extract the abundance matrix from MPSE object or tbl_mpse object |
mp_extract_assays,MPSE |
extract the abundance matrix from MPSE object or tbl_mpse object |
mp_extract_assays,tbl_mpse |
extract the abundance matrix from MPSE object or tbl_mpse object |
mp_extract_assays-method |
extract the abundance matrix from MPSE object or tbl_mpse object |
mp_extract_dist |
extract the dist object from MPSE or tbl_mpse object |
mp_extract_dist,grouped_df_mpse |
extract the dist object from MPSE or tbl_mpse object |
mp_extract_dist,MPSE |
extract the dist object from MPSE or tbl_mpse object |
mp_extract_dist,tbl_mpse |
extract the dist object from MPSE or tbl_mpse object |
mp_extract_dist-method |
extract the dist object from MPSE or tbl_mpse object |
mp_extract_feature |
extract the feature (OTU) information in MPSE object |
mp_extract_feature,grouped_df_mpse |
extract the feature (OTU) information in MPSE object |
mp_extract_feature,MPSE |
extract the feature (OTU) information in MPSE object |
mp_extract_feature,tbl_mpse |
extract the feature (OTU) information in MPSE object |
mp_extract_feature-method |
extract the feature (OTU) information in MPSE object |
mp_extract_internal_attr |
Extracting the PCA, PCoA, etc results from MPSE or tbl_mpse object |
mp_extract_internal_attr,grouped_df_mpse |
Extracting the PCA, PCoA, etc results from MPSE or tbl_mpse object |
mp_extract_internal_attr,MPSE |
Extracting the PCA, PCoA, etc results from MPSE or tbl_mpse object |
mp_extract_internal_attr,tbl_mpse |
Extracting the PCA, PCoA, etc results from MPSE or tbl_mpse object |
mp_extract_internal_attr-method |
Extracting the PCA, PCoA, etc results from MPSE or tbl_mpse object |
mp_extract_otutree |
extract the taxonomy tree in MPSE object |
mp_extract_rarecurve |
Extract the result of mp_cal_rarecurve with action="add" from MPSE or tbl_mpse object |
mp_extract_rarecurve,grouped_df_mpse |
Extract the result of mp_cal_rarecurve with action="add" from MPSE or tbl_mpse object |
mp_extract_rarecurve,MPSE |
Extract the result of mp_cal_rarecurve with action="add" from MPSE or tbl_mpse object |
mp_extract_rarecurve,tbl_mpse |
Extract the result of mp_cal_rarecurve with action="add" from MPSE or tbl_mpse object |
mp_extract_rarecurve-method |
Extract the result of mp_cal_rarecurve with action="add" from MPSE or tbl_mpse object |
mp_extract_refseq |
Extract the representative sequences from MPSE object |
mp_extract_refseq,grouped_df_mpse |
Extract the representative sequences from MPSE object |
mp_extract_refseq,MPSE |
Extract the representative sequences from MPSE object |
mp_extract_refseq,tbl_mpse |
Extract the representative sequences from MPSE object |
mp_extract_refseq-method |
Extract the representative sequences from MPSE object |
mp_extract_sample |
extract the sample information in MPSE object |
mp_extract_sample,grouped_df_mpse |
extract the sample information in MPSE object |
mp_extract_sample,MPSE |
extract the sample information in MPSE object |
mp_extract_sample,tbl_mpse |
extract the sample information in MPSE object |
mp_extract_sample-method |
extract the sample information in MPSE object |
mp_extract_taxatree |
extract the taxonomy tree in MPSE object |
mp_extract_taxonomy |
extract the taxonomy annotation in MPSE object |
mp_extract_taxonomy,grouped_df_mpse |
extract the taxonomy annotation in MPSE object |
mp_extract_taxonomy,MPSE |
extract the taxonomy annotation in MPSE object |
mp_extract_taxonomy,tbl_mpse |
extract the taxonomy annotation in MPSE object |
mp_extract_taxonomy-method |
extract the taxonomy annotation in MPSE object |
mp_extract_tree |
extract the taxonomy tree in MPSE object |
mp_extract_tree,grouped_df_mpse |
extract the taxonomy tree in MPSE object |
mp_extract_tree,MPSE |
extract the taxonomy tree in MPSE object |
mp_extract_tree,tbl_mpse |
extract the taxonomy tree in MPSE object |
mp_extract_tree-method |
extract the taxonomy tree in MPSE object |
mp_filter_taxa |
Filter OTU (Features) By Abundance Level |
mp_filter_taxa,grouped_df_mpse |
Filter OTU (Features) By Abundance Level |
mp_filter_taxa,MPSE |
Filter OTU (Features) By Abundance Level |
mp_filter_taxa,tbl_mpse |
Filter OTU (Features) By Abundance Level |
mp_filter_taxa-method |
Filter OTU (Features) By Abundance Level |
mp_fortify |
mp_fortify |
mp_import_biom |
building MPSE object from biom-format file. |
mp_import_dada2 |
Import function to load the feature table and taxonomy table of dada2 |
mp_import_humann_regroup |
Import function to load the output of human_regroup_table in HUMAnN. |
mp_import_metaphlan |
Import function to load the output of MetaPhlAn. |
mp_import_qiime |
Import function to load the output of qiime. |
mp_import_qiime2 |
Import function to load the output of qiime2. |
mp_mantel |
Mantel and Partial Mantel Tests for MPSE or tbl_mpse Object |
mp_mantel,grouped_df_mpse |
Mantel and Partial Mantel Tests for MPSE or tbl_mpse Object |
mp_mantel,MPSE |
Mantel and Partial Mantel Tests for MPSE or tbl_mpse Object |
mp_mantel,tbl_mpse |
Mantel and Partial Mantel Tests for MPSE or tbl_mpse Object |
mp_mantel-method |
Mantel and Partial Mantel Tests for MPSE or tbl_mpse Object |
mp_mrpp |
Analysis of Multi Response Permutation Procedure (MRPP) with MPSE or tbl_mpse object |
mp_mrpp,grouped_df_mpse |
Analysis of Multi Response Permutation Procedure (MRPP) with MPSE or tbl_mpse object |
mp_mrpp,MPSE |
Analysis of Multi Response Permutation Procedure (MRPP) with MPSE or tbl_mpse object |
mp_mrpp,tbl_mpse |
Analysis of Multi Response Permutation Procedure (MRPP) with MPSE or tbl_mpse object |
mp_mrpp-method |
Analysis of Multi Response Permutation Procedure (MRPP) with MPSE or tbl_mpse object |
mp_plot_abundance |
plotting the abundance of taxa via specified taxonomy class |
mp_plot_abundance,grouped_df_mpse |
plotting the abundance of taxa via specified taxonomy class |
mp_plot_abundance,MPSE |
plotting the abundance of taxa via specified taxonomy class |
mp_plot_abundance,tbl_mpse |
plotting the abundance of taxa via specified taxonomy class |
mp_plot_abundance-method |
plotting the abundance of taxa via specified taxonomy class |
mp_plot_alpha |
Plotting the alpha diversity between samples or groups. |
mp_plot_alpha,grouped_df_mpse |
Plotting the alpha diversity between samples or groups. |
mp_plot_alpha,MPSE |
Plotting the alpha diversity between samples or groups. |
mp_plot_alpha,tbl_mpse |
Plotting the alpha diversity between samples or groups. |
mp_plot_alpha-method |
Plotting the alpha diversity between samples or groups. |
mp_plot_diff_boxplot |
displaying the differential result contained abundance and LDA with boxplot (abundance) and error bar (LDA). |
mp_plot_diff_boxplot,grouped_df_mpse |
displaying the differential result contained abundance and LDA with boxplot (abundance) and error bar (LDA). |
mp_plot_diff_boxplot,MPSE |
displaying the differential result contained abundance and LDA with boxplot (abundance) and error bar (LDA). |
mp_plot_diff_boxplot,tbl_mpse |
displaying the differential result contained abundance and LDA with boxplot (abundance) and error bar (LDA). |
mp_plot_diff_boxplot-method |
displaying the differential result contained abundance and LDA with boxplot (abundance) and error bar (LDA). |
mp_plot_diff_cladogram |
Visualizing the result of mp_diff_analysis with cladogram. |
mp_plot_diff_manhattan |
displaying the differential result contained abundance and LDA with manhattan plot. |
mp_plot_diff_manhattan,grouped_df_mpse |
displaying the differential result contained abundance and LDA with manhattan plot. |
mp_plot_diff_manhattan,MPSE |
displaying the differential result contained abundance and LDA with manhattan plot. |
mp_plot_diff_manhattan,tbl_mpse |
displaying the differential result contained abundance and LDA with manhattan plot. |
mp_plot_diff_manhattan-method |
displaying the differential result contained abundance and LDA with manhattan plot. |
mp_plot_diff_res |
The visualization of result of mp_diff_analysis |
mp_plot_diff_res,grouped_df_mpse |
The visualization of result of mp_diff_analysis |
mp_plot_diff_res,MPSE |
The visualization of result of mp_diff_analysis |
mp_plot_diff_res,tbl_mpse |
The visualization of result of mp_diff_analysis |
mp_plot_diff_res-method |
The visualization of result of mp_diff_analysis |
mp_plot_dist |
Plotting the distance between the samples with heatmap or boxplot. |
mp_plot_dist,grouped_df_mpse |
Plotting the distance between the samples with heatmap or boxplot. |
mp_plot_dist,MPSE |
Plotting the distance between the samples with heatmap or boxplot. |
mp_plot_dist,tbl_mpse |
Plotting the distance between the samples with heatmap or boxplot. |
mp_plot_dist-method |
Plotting the distance between the samples with heatmap or boxplot. |
mp_plot_ord |
Plotting the result of PCA, PCoA, CCA, RDA, NDMS or DCA |
mp_plot_ord,grouped_df_mpse |
Plotting the result of PCA, PCoA, CCA, RDA, NDMS or DCA |
mp_plot_ord,MPSE |
Plotting the result of PCA, PCoA, CCA, RDA, NDMS or DCA |
mp_plot_ord,tbl_mpse |
Plotting the result of PCA, PCoA, CCA, RDA, NDMS or DCA |
mp_plot_ord-method |
Plotting the result of PCA, PCoA, CCA, RDA, NDMS or DCA |
mp_plot_rarecurve |
Rarefaction alpha index with MPSE |
mp_plot_rarecurve,grouped_tbl_mpse |
Rarefaction alpha index with MPSE |
mp_plot_rarecurve,MPSE |
Rarefaction alpha index with MPSE |
mp_plot_rarecurve,tbl_mpse |
Rarefaction alpha index with MPSE |
mp_plot_rarecurve-method |
Rarefaction alpha index with MPSE |
mp_plot_upset |
Plotting the different number of OTU between group via UpSet plot |
mp_plot_upset,grouped_df_mpse |
Plotting the different number of OTU between group via UpSet plot |
mp_plot_upset,MPSE |
Plotting the different number of OTU between group via UpSet plot |
mp_plot_upset,tbl_mpse |
Plotting the different number of OTU between group via UpSet plot |
mp_plot_upset-method |
Plotting the different number of OTU between group via UpSet plot |
mp_plot_venn |
Plotting the different number of OTU between groups with Venn Diagram. |
mp_plot_venn,grouped_df_mpse |
Plotting the different number of OTU between groups with Venn Diagram. |
mp_plot_venn,MPSE |
Plotting the different number of OTU between groups with Venn Diagram. |
mp_plot_venn,tbl_mpse |
Plotting the different number of OTU between groups with Venn Diagram. |
mp_plot_venn-method |
Plotting the different number of OTU between groups with Venn Diagram. |
mp_rrarefy |
mp_rrarefy method |
mp_rrarefy,grouped_df_mpse |
mp_rrarefy method |
mp_rrarefy,MPSE |
mp_rrarefy method |
mp_rrarefy,tbl_mpse |
mp_rrarefy method |
mp_rrarefy-method |
mp_rrarefy method |
mp_select_as_tip |
select specific taxa level as rownames of MPSE |
mp_select_as_tip,grouped_df_mpse |
select specific taxa level as rownames of MPSE |
mp_select_as_tip,MPSE |
select specific taxa level as rownames of MPSE |
mp_select_as_tip,tbl_mpse |
select specific taxa level as rownames of MPSE |
mp_select_as_tip-method |
select specific taxa level as rownames of MPSE |
mp_stat_taxa |
Count the number and total number taxa for each sample at different taxonomy levels |
mp_stat_taxa,grouped_df_mpse |
Count the number and total number taxa for each sample at different taxonomy levels |
mp_stat_taxa,MPSE |
Count the number and total number taxa for each sample at different taxonomy levels |
mp_stat_taxa,tbl_mpse |
Count the number and total number taxa for each sample at different taxonomy levels |
mp_stat_taxa-method |
Count the number and total number taxa for each sample at different taxonomy levels |
multi_compare |
a container for performing two or more sample test. |