Files in shashidhar22/LymphoSeq2
Analyze high-throughput sequencing of T and B cell receptors

.Rbuildignore

.github/.gitignore

.github/workflows/R-CMD-check.yaml

.github/workflows/pkgdown.yaml

.gitignore

DESCRIPTION

NAMESPACE

R/LymphoSeq2-package.R R/alignSeq.R R/chordDiagramVDJ.R R/clonalRelatedness.R R/clonality.R R/cloneTrack.R R/commonSeqs.R R/commonSeqsBar.R R/commonSeqsPlot.R R/commonSeqsVenn.R R/countKmer.R R/data.R R/differentialAbundance.R R/exportFasta.R R/geneFreq.R R/getLorenz.R R/phyloTree.R R/plotAlignment.R R/plotLorenzCurve.R R/plotPairwise.R R/plotPairwiseNetwork.R R/plotTrack.R R/plotTrackSingular.R R/rarefactionCurve.R R/read10x.R R/readGliphTable.R R/readImmunoSeq.R R/readProductiveSeq.R R/removeSeq.R R/runINext.R R/scoringMatrix.R R/searchDB.R R/searchPublished.R R/searchSeq.R R/seqMatrix.R R/topFreq.R R/topSeqs.R R/topSeqsPlot.R R/uniqueSeqs.R README.Rmd README.md

_pkgdown.yml

data/antigen_db.rda

data/prevalenceTRB.rda

data/publishedTRB.rda

docs/404.html

docs/authors.html

docs/deps/bootstrap-5.1.0/bootstrap.bundle.min.js

docs/deps/bootstrap-5.1.0/bootstrap.bundle.min.js.map

docs/deps/bootstrap-5.1.0/bootstrap.min.css

docs/deps/data-deps.txt

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docs/pkgdown.yml

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man/LymphoSeq2-package.Rd man/alignSeq.Rd man/antigen_db.Rd man/bhattacharyyaCoefficient.Rd man/calculateCounts.Rd man/chordDiagramVDJ.Rd man/clonalRelatedness.Rd man/clonality.Rd man/cloneTrack.Rd man/collpase_chains.Rd man/commonSeqs.Rd man/commonSeqsBar.Rd man/commonSeqsPlot.Rd man/commonSeqsVenn.Rd man/countKmer.Rd man/differentialAbundance.Rd man/exportFasta.Rd man/figures/BioRender_Publication_License_Jan-11-2024.pdf

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man/fisherFunction.Rd man/geneFreq.Rd man/getGliphTable.Rd man/getLorenz.Rd man/getRelatedness.Rd man/iterativeSummary.Rd man/kmerPlot.Rd man/lorenzCurve.Rd man/mostPrevalent.Rd man/pairwiseNetwork.Rd man/pairwisePlot.Rd man/percentSI.Rd man/phyloTree.Rd man/plotAlignment.Rd man/plotRarefactionCurve.Rd man/plotTrack.Rd man/plotTrackSingular.Rd man/prepDB.Rd man/prevalenceTRB.Rd man/productiveSeq.Rd man/publishedTRB.Rd man/read10x.Rd man/readGliph.Rd man/readImmunoSeq.Rd man/removeSeq.Rd man/runINext.Rd man/sampledSummary.Rd man/scoringMatrix.Rd man/searchDB.Rd man/searchPublished.Rd man/searchSeq.Rd man/selectChain.Rd man/seqMatrix.Rd man/similarityScore.Rd man/sorensenIndex.Rd man/standardize10x.Rd man/summarySeq.Rd man/topFreq.Rd man/topSeqs.Rd man/topSeqsPlot.Rd man/uniqueSeqs.Rd man/writeFasta.Rd tests/testthat.R tests/testthat/test_align.R tests/testthat/test_clonality.R tests/testthat/test_clonalrelatedness.R tests/testthat/test_countkmer.R

tests/testthat/test_data/015V06013979_CFAR.tsv

tests/testthat/test_data/015V12001549_CFAR.tsv

tests/testthat/test_data/015V12001685_CFAR_R.tsv

tests/testthat/test_data/015V12003105_CFAR.tsv

tests/testthat/test_data/gliph/015V04005438_CFAR.tsv

tests/testthat/test_data/gliph/015V05003835_CFAR.tsv

tests/testthat/test_data/prevalenceTRB.rda

tests/testthat/test_genefreq.R tests/testthat/test_gliph.R tests/testthat/test_prodseq.R tests/testthat/test_reader.R tests/testthat/test_searchseq.R tests/testthat/test_topseq.R vignettes/LymphoSeq2.Rmd

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shashidhar22/LymphoSeq2
Analyze high-throughput sequencing of T and B cell receptors

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Analyze high-throughput sequencing of T and B cell receptors

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shashidhar22/LymphoSeq2 Analyze high-throughput sequencing of T and B cell receptors

Files in shashidhar22/LymphoSeq2 Analyze high-throughput sequencing of T and B cell receptors

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shashidhar22/LymphoSeq2
Analyze high-throughput sequencing of T and B cell receptors

Files in shashidhar22/LymphoSeq2
Analyze high-throughput sequencing of T and B cell receptors