Files in timjeske/DEUS
Differential expression of unique sequences
.Rbuildignore
.gitignore
DESCRIPTION
DEUS.Rproj
LICENSE
NAMESPACE
R/DESeq2.R
R/blast.R
R/clustering.R
R/counting.R
R/stats.R
R/utils.R
README.Rmd
README.md
_pkgdown.yml
docs/LICENSE-text.html
docs/articles/DEUS.html
docs/articles/DEUS_files/figure-html/unnamed-chunk-1-1.png
docs/articles/DEUS_files/figure-html/unnamed-chunk-1-2.png
docs/articles/SampleUsage.html
docs/articles/index.html
docs/authors.html
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/jquery.sticky-kit.min.js
docs/link.svg
docs/pics/DEUS_logo_v2.png
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/addCountsOfFeatureClasses.html
docs/reference/createCountTableFromFastQs.html
docs/reference/createMap.html
docs/reference/deleteTmp.html
docs/reference/generateSummaryPlots.html
docs/reference/getConditionCountStats.html
docs/reference/getNoBlastHitFraction.html
docs/reference/index.html
docs/reference/mergeAndAggregate.html
docs/reference/mergeResults.html
docs/reference/mergeSingleAndClusterResults.html
docs/reference/plotPCA.html
docs/reference/plotSampleDistanceMap.html
docs/reference/printCluster.html
docs/reference/printClusterSummary.html
docs/reference/processClusters.html
docs/reference/runBlast.html
docs/reference/runClustering.html
docs/reference/runDESeq2.html
docs/reference/sequencesAsFasta.html
docs/reference/writeSummaryFiles.html
docs/sitemap.xml
inst/extdata/blastdb/DASHR_subset.fa
inst/extdata/blastdb/DASHR_subset.fa.nhr
inst/extdata/blastdb/DASHR_subset.fa.nin
inst/extdata/blastdb/DASHR_subset.fa.nsq
inst/extdata/cond1_s1.fwd.fq.gz
inst/extdata/cond1_s2.fwd.fq.gz
inst/extdata/cond1_s3.fwd.fq.gz
inst/extdata/cond1_s4.fwd.fq.gz
inst/extdata/cond1_s5.fwd.fq.gz
inst/extdata/cond2_s1.fwd.fq.gz
inst/extdata/cond2_s2.fwd.fq.gz
inst/extdata/cond2_s3.fwd.fq.gz
inst/extdata/cond2_s4.fwd.fq.gz
inst/extdata/cond2_s5.fwd.fq.gz
inst/extdata/condition.tsv
inst/extdata/results/blast_result_clust_sequences.tsv
inst/extdata/results/blast_result_sig_sequences.tsv
inst/extdata/results/clust_result_clust_sequences.tsv
inst/extdata/results/clust_result_sig_sequences.tsv
man/addCountsOfFeatureClasses.Rd
man/createCountTableFromFastQs.Rd
man/createMap.Rd
man/deleteTmp.Rd
man/getConditionCountStats.Rd
man/getNoBlastHitFraction.Rd
man/mergeAndAggregate.Rd
man/mergeResults.Rd
man/mergeSingleAndClusterResults.Rd
man/plotPCA.Rd
man/plotSampleDistanceMap.Rd
man/printCluster.Rd
man/printClusterSummary.Rd
man/processClusters.Rd
man/runBlast.Rd
man/runClustering.Rd
man/runDESeq2.Rd
man/sequencesAsFasta.Rd
man/writeSummaryFiles.Rd
sample_usage.R
sample_usage_withCl.R
vignettes/DEUS.Rmd
vignettes/SampleUsage.Rmd
