Man pages for CharlesJB/rnaseq
Wrapper Functions for RNA-Seq Post-Processing

deseq2_analysisDESeq2 analysis
format_countsPrepare formated table counts.
format_dePrepare formated DE table.
get_demo_abundance_filesGet demo kallisto abundance files
get_demo_designGet demo design
get_demo_kallisto_dirGet demo kallisto quant dir
get_demo_txiGet demo txi file
get_raw_count_anno_dfExtract raw counts with annotation data.frame from txi
get_tpm_anno_dfExtract TPM with annotation data.frame from txi
Hs.Ensembl79Annotation for Homo sapiens Ensembl release 79
Hs.Ensembl91Annotation for Homo sapiens Ensembl release 91
Hs.Gencode27Annotation for Homo sapiens Gencode release 27
import_kallistoImport quantifications from Kallisto
Mm.Ensembl91Annotation for Mus musculus Ensembl release 91
Mm.Ensembl92Annotation for Mus musculus Ensembl release 92
Mm.Ensembl94Annotation for Mus musculus Ensembl release 94
produce_deliverablesProduce deliverables
produce_pcaProduce a PCA plot
Rn.Ensembl92Annotation for Rattus norvegicus Ensembl release 76
CharlesJB/rnaseq documentation built on Dec. 20, 2018, 7:57 a.m.