Files in csoneson/alevinQC
Generate QC Reports For Alevin Output
.Rbuildignore
.github/workflows/R-CMD-check.yaml
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
NEWS.md
R/RcppExports.R
R/alevinQC-package.R
R/alevinQCReport.R
R/alevinQCShiny.R
R/checkAlevinFryInputFiles.R
R/checkAlevinInputFiles.R
R/plotAlevinBarcodeCollapse.R
R/plotAlevinHistogram.R
R/plotAlevinKneeNbrGenes.R
R/plotAlevinKneeRaw.R
R/plotAlevinQuant.R
R/plotAlevinQuantPairs.R
R/readAlevinFryQC.R
R/readAlevinQC.R
R/utils.R
README.md
_pkgdown.yml
inst/extdata/alevinQC_screenshot1.png
inst/extdata/alevinQC_screenshot2.png
inst/extdata/alevin_example_pre0.14/alevin/MappedUmi.txt
inst/extdata/alevin_example_pre0.14/alevin/featureDump.txt
inst/extdata/alevin_example_pre0.14/alevin/filtered_cb_frequency.txt
inst/extdata/alevin_example_pre0.14/alevin/predictions.txt
inst/extdata/alevin_example_pre0.14/alevin/quants_mat.gz
inst/extdata/alevin_example_pre0.14/alevin/quants_mat_cols.txt
inst/extdata/alevin_example_pre0.14/alevin/quants_mat_rows.txt
inst/extdata/alevin_example_pre0.14/alevin/raw_cb_frequency.txt
inst/extdata/alevin_example_pre0.14/alevin/whitelist.txt
inst/extdata/alevin_example_pre0.14/aux_info/meta_info.json
inst/extdata/alevin_example_pre0.14/cmd_info.json
inst/extdata/alevin_example_pre0.14/lib_format_counts.json
inst/extdata/alevin_example_v0.14/alevin/featureDump.txt
inst/extdata/alevin_example_v0.14/alevin/raw_cb_frequency.txt
inst/extdata/alevin_example_v0.14/alevin/whitelist.txt
inst/extdata/alevin_example_v0.14/aux_info/alevin_meta_info.json
inst/extdata/alevin_example_v0.14/aux_info/meta_info.json
inst/extdata/alevin_example_v0.14/cmd_info.json
inst/extdata/alevin_example_v0.14/lib_format_counts.json
inst/extdata/alevin_report_template.Rmd
inst/extdata/alevinfry_example_piscem_v0.6.0/af_map/map_info.json
inst/extdata/alevinfry_example_piscem_v0.6.0/af_quant/alevin/quants_mat_rows.txt
inst/extdata/alevinfry_example_piscem_v0.6.0/af_quant/all_freq.bin
inst/extdata/alevinfry_example_piscem_v0.6.0/af_quant/featureDump.txt
inst/extdata/alevinfry_example_piscem_v0.6.0/af_quant/generate_permit_list.json
inst/extdata/alevinfry_example_piscem_v0.6.0/af_quant/permit_freq.bin
inst/extdata/alevinfry_example_piscem_v0.6.0/af_quant/quant.json
inst/extdata/alevinfry_example_v0.4.3/map/aux_info/meta_info.json
inst/extdata/alevinfry_example_v0.4.3/map/cmd_info.json
inst/extdata/alevinfry_example_v0.4.3/permit/all_freq.tsv
inst/extdata/alevinfry_example_v0.4.3/permit/generate_permit_list.json
inst/extdata/alevinfry_example_v0.4.3/permit/permit_freq.tsv
inst/extdata/alevinfry_example_v0.4.3/quant/alevin/quants_mat_rows.txt
inst/extdata/alevinfry_example_v0.4.3/quant/featureDump.txt
inst/extdata/alevinfry_example_v0.4.3/quant/quant.json
inst/extdata/alevinfry_example_v0.5.0/map/aux_info/meta_info.json
inst/extdata/alevinfry_example_v0.5.0/map/cmd_info.json
inst/extdata/alevinfry_example_v0.5.0/permit/all_freq.bin
inst/extdata/alevinfry_example_v0.5.0/permit/generate_permit_list.json
inst/extdata/alevinfry_example_v0.5.0/permit/permit_freq.bin
inst/extdata/alevinfry_example_v0.5.0/quant/featureDump.txt
inst/extdata/alevinfry_example_v0.5.0/quant/quant.json
inst/extdata/permit_freq.bin
man/alevinQC-package.Rd
man/checkAlevinFryInputFiles.Rd
man/checkAlevinInputFiles.Rd
man/plotAlevinBarcodeCollapse.Rd
man/plotAlevinHistogram.Rd
man/plotAlevinKneeNbrGenes.Rd
man/plotAlevinKneeRaw.Rd
man/plotAlevinQuant.Rd
man/plotAlevinQuantPairs.Rd
man/qcReport.Rd
man/qcShiny.Rd
man/readAlevinFryQC.Rd
man/readAlevinQC.Rd
src/Kmer.h
src/KmerFull.h
src/RcppExports.cpp
src/convert_permit_freq.cpp
tests/testthat.R
tests/testthat/test-alevin-fry-piscem-v0.6.0.R
tests/testthat/test-alevin-fry-v0.4.3.R
tests/testthat/test-alevin-fry-v0.5.0.R
tests/testthat/test-alevin-pre0.14.R
tests/testthat/test-alevin-v0.14.R
tests/testthat/test-get_permit_freq.R
tests/testthat/tests-utils.R
vignettes/alevinqc.Rmd
vignettes/bibliography.bib
