Files in protViz/prozor
Minimal Protein Set Explaining Peptide Spectrum Matches
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS.md
R/annotatePeptides.R
R/cdsw.R
R/computeFDR.R
R/createDecoyDB.R
R/create_fgcz_fasta_db.R
R/greedy.R
R/hello.R
R/loadContaminantsFasta.R
R/prepareMatrix.R
R/readFasta.R
R/readjustWindow.R
R/removeSignalPeptides.R
R/reverseSeq.R
R/tieResolution.R
R/writeFasta.R
R/zzz.R
README.md
_pkgdown.yml
data/bcd.rda
data/fdrSample.rda
data/masses.rda
data/mm.rda
data/pepprot.rda
data/protpepmetashort.tab
inst/creatingDBs/CreateDB.Rmd
inst/creatingDBs/fixCont.Rmd
inst/creatingDBs/specAnnotationMilena.Rmd
inst/extdata/IDResults.txt.gz
inst/extdata/fgcz_contaminants2019_20190708.fasta.gz
inst/extdata/fgcz_contaminants2021_20210929.fasta.gz
inst/extdata/fgcz_contaminants2022_20220405.fasta.gz
inst/extdata/fgcz_special_prot_20241112.fasta.gz
inst/extdata/fgcz_universal_contaminants_github_20241112.fasta.gz
inst/p1000_db1_example/Annotation_allSeq.fasta.gz
inst/p1000_db1_example/Annotation_canSeq.fasta.gz
inst/p1000_db1_example/annotation.txt
inst/script/.gitignore
inst/script/fgcz_create_fasta.R
inst/script/makeNoDecoy.sh
inst/script/makeNoDecoy_j.sh
inst/script/makeNoDecoy_noCont_j.sh
inst/script/makeWithDecoy.sh
inst/script/makeWithDecoy_j.sh
inst/script/makeWithDecoy_noCont_j.sh
man/Cdsw-class.Rd
man/annotateAHO.Rd
man/annotatePeptides.Rd
man/bcd.Rd
man/computeFDR.Rd
man/computeFDRwithID.Rd
man/createDecoyDB.Rd
man/create_fgcz_fasta_db.Rd
man/fdrSample.Rd
man/greedyRes2Matrix.Rd
man/greedy_parsimony.Rd
man/hardconstrain.Rd
man/loadContaminantsFGCZ2022.Rd
man/loadContaminantsFasta2019.Rd
man/loadContaminantsFasta2021.Rd
man/load_special_prot_2024.Rd
man/load_universal_contaminants_2024.Rd
man/makeID.Rd
man/makeIDUnip.Rd
man/make_fasta_summary.Rd
man/masses.Rd
man/objectiveMS1Function.Rd
man/pepprot.Rd
man/plotFDR.Rd
man/predictScoreFDR.Rd
man/prepareMatrix.Rd
man/protpepmetashort.Rd
man/prozor.Rd
man/readPeptideFasta.Rd
man/readjustWindows.Rd
man/removeSignalPeptide.Rd
man/reverseSeq.Rd
man/writeFasta.Rd
prozor.Rproj
vignettes/.gitignore
vignettes/CreatingDecoyDB.Rmd
vignettes/PeptideAnnotationwithProzor.Rmd
vignettes/PlottingProteinCoverage.qmd
vignettes/TargetDecoyComet.Rmd
vignettes/TargetDecoyFDR_Example.Rmd
vignettes/bibliography.bib
vignettes/cdsw.Rmd
