Files in Danis102/seqpac
Seqpac: A Framework for smallRNA analysis in R using Sequence-Based Counts
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS
R/PAC_check.R
R/PAC_covplot.R
R/PAC_deseq.R
R/PAC_filter.R
R/PAC_filtsep.R
R/PAC_gtf.R
R/PAC_jitter.R
R/PAC_mapper.R
R/PAC_nbias.R
R/PAC_norm.R
R/PAC_pca.R
R/PAC_pie.R
R/PAC_saturation.R
R/PAC_sizedist.R
R/PAC_stackbar.R
R/PAC_summary.R
R/PAC_trna.R
R/add_reanno.R
R/create_PAC.R
R/filtsep_bin.R
R/import_reanno.R
R/make_PAC.R
R/make_conv.R
R/make_counts.R
R/make_cutadapt.R
R/make_pheno.R
R/make_reanno.R
R/make_trim.R
R/map_rangetype.R
R/map_reanno.R
R/merge_lanes.R
R/seqpac_S4classes.R
R/seqpac_generics_methods.R
R/simplify_reanno.R
R/tRNA_class.R
R/zzz.R
README.md
inst/CITATION
inst/extdata/drosophila_sRNA_pac_filt_anno.Rdata
inst/extdata/mycoplasma_genome/mycoplasma.fa
inst/extdata/rrna/rRNA.fa
inst/extdata/seqpac_fq1.fastq.gz
inst/extdata/seqpac_fq2.fastq.gz
inst/extdata/seqpac_fq3.fastq.gz
inst/extdata/seqpac_fq4.fastq.gz
inst/extdata/seqpac_fq5.fastq.gz
inst/extdata/seqpac_fq6.fastq.gz
inst/extdata/trna/tRNA.fa
inst/extdata/trna2/tRNA2.fa
inst/extdata/trna2/tRNA2.ss
man/PAC.Rd
man/PAC_check.Rd
man/PAC_covplot.Rd
man/PAC_deseq.Rd
man/PAC_filter.Rd
man/PAC_filtsep.Rd
man/PAC_gtf.Rd
man/PAC_jitter.Rd
man/PAC_mapper.Rd
man/PAC_nbias.Rd
man/PAC_norm.Rd
man/PAC_pca.Rd
man/PAC_pie.Rd
man/PAC_saturation.Rd
man/PAC_sizedist.Rd
man/PAC_stackbar.Rd
man/PAC_summary.Rd
man/PAC_trna.Rd
man/add_reanno.Rd
man/anno.Rd
man/as.PAC.Rd
man/as.reanno.Rd
man/colnames.Rd
man/counts.Rd
man/create_PAC.Rd
man/filtsep_bin.Rd
man/full.Rd
man/import_reanno.Rd
man/length.Rd
man/make_PAC.Rd
man/make_conv.Rd
man/make_counts.Rd
man/make_cutadapt.Rd
man/make_pheno.Rd
man/make_reanno.Rd
man/make_trim.Rd
man/map_rangetype.Rd
man/map_reanno.Rd
man/merge_lanes.Rd
man/names.Rd
man/ncol.Rd
man/norm.Rd
man/nrow.Rd
man/overview.Rd
man/pheno.Rd
man/reanno.Rd
man/rownames.Rd
man/show.Rd
man/simplify_reanno.Rd
man/summary.Rd
man/tRNA_class.Rd
seqpac_ssbranch.Rproj
tests/testthat.R
tests/testthat/test_PAC_preprocess.R
vignettes/.gitignore
vignettes/seqpac_-_A_guide_to_sRNA_analysis_using_sequence-based_counts.Rmd
