├── LICENSE ├── README.md ├── example └── protein-fdp_protein_input.tsv.gz ├── pom.xml └── src └── main ├── java ├── FDR │ ├── CParameter.java │ ├── CallCrux.java │ ├── DBGear.java │ ├── DigestProteinWorker4FDR.java │ ├── FDPCalc.java │ ├── FDPCalcCE.java │ ├── FDPCalcKFold.java │ ├── FDREval.java │ ├── FDRType.java │ ├── PEntrapment.java │ ├── PMatch.java │ └── PeptidePair.java └── util │ ├── Cloger.java │ └── log4j.properties └── resources ├── log4j2.xml └── project.properties /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/README.md -------------------------------------------------------------------------------- /example/protein-fdp_protein_input.tsv.gz: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/example/protein-fdp_protein_input.tsv.gz -------------------------------------------------------------------------------- /pom.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/pom.xml -------------------------------------------------------------------------------- /src/main/java/FDR/CParameter.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/CParameter.java -------------------------------------------------------------------------------- /src/main/java/FDR/CallCrux.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/CallCrux.java -------------------------------------------------------------------------------- /src/main/java/FDR/DBGear.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/DBGear.java -------------------------------------------------------------------------------- /src/main/java/FDR/DigestProteinWorker4FDR.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/DigestProteinWorker4FDR.java -------------------------------------------------------------------------------- /src/main/java/FDR/FDPCalc.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/FDPCalc.java -------------------------------------------------------------------------------- /src/main/java/FDR/FDPCalcCE.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/FDPCalcCE.java -------------------------------------------------------------------------------- /src/main/java/FDR/FDPCalcKFold.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/FDPCalcKFold.java -------------------------------------------------------------------------------- /src/main/java/FDR/FDREval.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/FDREval.java -------------------------------------------------------------------------------- /src/main/java/FDR/FDRType.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/FDRType.java -------------------------------------------------------------------------------- /src/main/java/FDR/PEntrapment.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/PEntrapment.java -------------------------------------------------------------------------------- /src/main/java/FDR/PMatch.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/PMatch.java -------------------------------------------------------------------------------- /src/main/java/FDR/PeptidePair.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/FDR/PeptidePair.java -------------------------------------------------------------------------------- /src/main/java/util/Cloger.java: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/util/Cloger.java -------------------------------------------------------------------------------- /src/main/java/util/log4j.properties: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/java/util/log4j.properties -------------------------------------------------------------------------------- /src/main/resources/log4j2.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/resources/log4j2.xml -------------------------------------------------------------------------------- /src/main/resources/project.properties: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Noble-Lab/FDRBench/HEAD/src/main/resources/project.properties --------------------------------------------------------------------------------