1cbccf85f91acc94f9d1afe57967465a *DESCRIPTION
c12e794a75e42a998380f4334c941ff2 *NAMESPACE
7ae73f9d2b047d4a0bdaac9256120b3f *NEWS.md
17ef859399fc17d2df07368316cadda2 *R/alignment.R
2af05f1a74c8c3eb090db62b7acba937 *R/classes.R
2937349fa400dab4a9cfbfcb56082ba5 *R/import.R
a53be02be2a0765279c4845c215dabdc *R/legacy.R
247e883c69371f5afb98232f90e71c74 *R/runUmiVisualizer.R
42149840e03e6867487614b54d1c6890 *R/simsen-data.R
c3d241e3c40867f7ab878e8c6af8a6ef *R/utilities.R
1ae456cb14f9615718a03ee666475358 *R/variant_caller.R
5833bedb8ed52761e9752d9128d866b8 *R/visualization.R
22c80e6f4d16deaf52ce9bbf0a3bc22d *README.md
e88708441b3c6361aade1426331cfe7d *build/vignette.rds
9d4794630c80cb9678d31e728d75444a *inst/doc/vignette.R
0cdfac2d8b9ec5539aa96cc2bd37c3d8 *inst/doc/vignette.Rmd
fdf402780a0860edb9b093d6228314ec *inst/doc/vignette.html
3f16ae0594bdd7e4ef9b4c145d29c5ab *inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x.cons
213e31b719135c96c9fc96c48f02c2b1 *inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x.hist
b202be670e514c8560345fc077ba03a9 *inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x_consensus_reads.bam
db18a059475a32da89b86cab5f3df8a3 *inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x_consensus_reads.bam.bai
012987741c7e243bc830c0a224b5a5e2 *inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x_summary_statistics.txt
0cd2e0089d453b22f9906e17e23cb991 *inst/extdata/VAF-1-5ng-1-10x/VAF-1-5ng-1-10x_target_coverage.txt
7be502fab2934169e301d8c875ef161b *inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x.cons
432bd9ad6be6212c1b108c695df30616 *inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x.hist
f1a0bd3630d5bf4316814de7fdc276a3 *inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x_consensus_reads.bam
3f83e5a05cc8517cfd3fd62b337e7fdf *inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x_consensus_reads.bam.bai
5b6b0d775b5127d9ac04e1d7e49b9dfd *inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x_summary_statistics.txt
cc492cb7ed3443fb5e3ef2c75d13ac26 *inst/extdata/WT-5ng-1-10x/WT-5ng-1-10x_target_coverage.txt
b6292b33e2927b7e1008488e7dc8202e *inst/extdata/metadata.csv
50128b2342f91c4e5c044f82096b78e3 *inst/extdata/metadata.tsv
11bc92f0744e7d85b6df7ba3896b9681 *inst/extdata/metadata.txt
5f28b78c369c8541c938f3e439eb9056 *inst/extdata/simple.bed
6909ccee3e9b6b79963c663c2a2937fb *inst/extdata/simple.vcf
9702a7e032af31356a20bc9dc1b733b9 *inst/shiny/report.Rmd
43f5f1629bafda80fb8867fb7241e890 *inst/shiny/server.R
9ee4cd828f53095809d43cd6c6f00dc5 *inst/shiny/ui.R
4a5d9effb2bde01a9c085ed05241f300 *inst/shiny/user_guide.Rmd
fec5176249e94f2f24737712f23ae169 *man/AmpliconHeatmap.Rd
85ceaf16df6adb7bd9444fcbf9a12f04 *man/AmpliconPlot.Rd
9132b7bae267ea0b781faad92f3da1c8 *man/BarcodeFamilyHistogram.Rd
fcdbc7f5fe80d80b90005a66cb1543ca *man/QCplot.Rd
dbd134fa610b421ce45857ef79943a3d *man/UMIexperiment-class.Rd
77577b5cf7a69b1c3c56a839f5bb2da6 *man/UMIsample-class.Rd
5f0ed0790703bf72d58ece15b2af2e72 *man/UmiCountsPlot.Rd
389827c1747d0ce1436f004f38637a25 *man/addMetaData.Rd
f21e171f00967064be2f7a4911fa2406 *man/addUmiSample.Rd
b754919d4a1a193f89cec561922f9b6d *man/beta_binom.Rd
2c73e54c36e1d794e4786a3e53b72974 *man/callVariants.Rd
beb1da303037af9ca7249709596cb4dd *man/createUMIexperiment_Debarcer.Rd
089e09d29d3cb1087bece8d0ee4bb2ae *man/createUMIsample_Debarcer.Rd
219438c9956cbb9496b0b91f58a21362 *man/createUmiExperiment.Rd
c34e7cfa9c237dfe43741561030ba185 *man/createUmiSample.Rd
8bf499d3da43b8fd8808e6ecfe82391f *man/download_template.Rd
d501562c56235c9c19b2c25930d3e465 *man/filterUmiObject.Rd
9a4a8dafdcac2c8efd981ebce7913ff8 *man/filterVariants.Rd
76cb25319a9e01c71ce1e3a9a9d5c451 *man/findConsensusReads.Rd
d3e5709eb3b17aef17016a6482148398 *man/generateVCF.Rd
58e1dbde9a9120a73c9578952eb1bd54 *man/getFilteredData.Rd
f39cd1c1c33f4f6d127191097c71cfc5 *man/getMetaData.Rd
0414d7df96b53bcb87379de3f2e28c82 *man/importBedFile.Rd
d9369f8c8c80bdcab4ab68a2b41a9403 *man/importDesign.Rd
6d0c497662ad627cd510e1d6f242c381 *man/mergeAssays.Rd
3332647e14ae5b6a2246eb4610f338e2 *man/parseBamFiles.Rd
569cb1d3dfd0b5924aa3dfb440e993c5 *man/runUmiVisualizer.Rd
847d03a62b4f7b6a114ae374588514e8 *man/saveConsData.Rd
b28b71e7bdf3975c21e7a09fcf585999 *man/simsen.Rd
d019e47ea8ea0e6c974abdc0facb9a75 *man/timeSeriesGrid.Rd
0cdfac2d8b9ec5539aa96cc2bd37c3d8 *vignettes/vignette.Rmd
