Targeted scRNA-seq primer design for TAP-seq

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Documentation for package ‘TAPseq’ version 1.18.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

accessors	Accessors for TsIO objects
beads_oligo	Accessors for TsIO objects
beads_oligo-method	TsIO class
beads_oligo<-	Accessors for TsIO objects
beads_oligo<--method	TsIO class
blastPrimers	Estimate primer off-targets using BLAST
blastPrimers-method	Estimate primer off-targets using BLAST
bone_marrow_genex	Mouse bone marrow 10x data
checkPrimers	Check primers for complementarity
checkPrimers-method	Check primers for complementarity
chr11_genes	Chromosome 11 genes
chr11_polyA_sites	Chromosome 11 polyA sites
chr11_primers	Chromosome 11 primers
chr11_truncated_txs	Chromosome 11 truncated transcripts
chr11_truncated_txs_seq	Chromosome 11 truncated transcript sequences
createBLASTDb	Estimate primer off-targets using BLAST
createIORecord	Create boulder IO record
createIORecord-method	Create boulder IO record
createPrimerTrack	Export TAP-seq primers
createPrimerTrack-method	Export TAP-seq primers
designPrimers	Design primers
designPrimers-method	Design primers
estimateOffTargets	Estimate primer off-targets using BLAST
exportPrimers	Export TAP-seq primers
exportPrimerTrack	Export TAP-seq primers
getTxsSeq	Get transcript sequences
getTxsSeq-method	Get transcript sequences
inferPolyASites	Infer polyA sites from droplet sequencing data
min_primer_region	Accessors for TsIO objects
min_primer_region-method	TsIO class
min_primer_region<-	Accessors for TsIO objects
min_primer_region<--method	TsIO class
pcr_products	Accessors for TsIO objects
pcr_products-method	TsIO class
pcr_products-method	TsIOList class
pickPrimers	Pick best TAP-seq primers
pickPrimers-method	Pick best TAP-seq primers
plotTargetGenes	Select target genes
primerDataFrame	Export TAP-seq primers
primerDataFrame-method	Export TAP-seq primers
primer_max_tm	Accessors for TsIO objects
primer_max_tm-method	TsIO class
primer_max_tm<-	Accessors for TsIO objects
primer_max_tm<--method	TsIO class
primer_min_tm	Accessors for TsIO objects
primer_min_tm-method	TsIO class
primer_min_tm<-	Accessors for TsIO objects
primer_min_tm<--method	TsIO class
primer_num_return	Accessors for TsIO objects
primer_num_return-method	TsIO class
primer_num_return<-	Accessors for TsIO objects
primer_num_return<--method	TsIO class
primer_opt_tm	Accessors for TsIO objects
primer_opt_tm-method	TsIO class
primer_opt_tm<-	Accessors for TsIO objects
primer_opt_tm<--method	TsIO class
product_size_range	Accessors for TsIO objects
product_size_range-method	TsIO class
product_size_range<-	Accessors for TsIO objects
product_size_range<--method	TsIO class
reverse_primer	Accessors for TsIO objects
reverse_primer-method	TsIO class
reverse_primer<-	Accessors for TsIO objects
reverse_primer<--method	TsIO class
selectTargetGenes	Select target genes
sequence_id	Accessors for TsIO objects
sequence_id-method	TsIO class
sequence_id-method	TsIOList class
sequence_id<-	Accessors for TsIO objects
sequence_id<--method	TsIO class
sequence_template	Accessors for TsIO objects
sequence_template-method	TsIO class
sequence_template-method	TsIOList class
TAPseq	TAPseq: R-package to design primers for TAP-seq
TAPseqInput	Create TAPseq input from target sequences
tapseq_primers	Accessors for TsIO objects
tapseq_primers-method	TsIO class
tapseq_primers-method	TsIOList class
target_annot	Accessors for TsIO objects
target_annot-method	TsIO class
target_annot-method	TsIOList class
target_annot<-	Accessors for TsIO objects
target_annot<--method	TsIO class
target_sequence	Accessors for TsIO objects
target_sequence-method	TsIO class
target_sequence-method	TsIOList class
target_sequence<-	Accessors for TsIO objects
target_sequence<--method	TsIO class
truncateTxsPolyA	Truncate transcripts at polyA sites
truncateTxsPolyA-method	Truncate transcripts at polyA sites
TsIO	TsIO class
TsIO-class	TsIO class
TsIOList	TsIOList class
TsIOList-class	TsIOList class