| 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 |
| ThreeMostPairBam |
ThreeMostPairBam, extract 3 prime most alignment of a paired-end bam file |
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