![[R logo]](../../../doc/html/Rlogo.svg)
![[Up]](../../../doc/html/left.jpg)
![[Top]](../../../doc/html/up.jpg)
| APABox | APABox, APA RED Box plotting |
| APAdiff | APAdiff, calculate delta relative expression (RED) and statistics significance between two sample groups |
| APAVolcano | APAVolcano, APA Volcano plotting |
| download_testbam | download_testbam, download bam files of mouse testis and heart |
| GENEXP_CDS | GENEXP_CDS, count reads mapped to CDS regions and calculate TPM for coding gene |
| PAS2GEF | PAS2GEF, build reference regions for 3'UTR PASs |
| PASEXP_3UTR | PASEXP_3UTR, calculate relative expression of aUTR and cUTR regions |
| PASEXP_IPA | PASEXP_IPA, calculate relative expression of IPA regions |
| REF3UTR | REF3UTR, build reference regions for 3'UTR PASs |
| REF4PAS | REF4PAS, build reference regions for 3'UTR and Intronic PAS using dataframe formated input |
| REFCDS | REFCDS, build reference regions for CDS of protein coding genes |