Commit 9d0f89b2 authored by khalid's avatar khalid
Browse files
parents ddcd1447 405098af
......@@ -40,6 +40,7 @@ containers: [
,{ name: "msgfp", version: "9949", description: "MS/MS database search tool", documentation: "http://proteomics.ucsd.edu/Software/MSGFPlus/", install: [] }
,{ name: "minimap2", version: "2.1.0",description: "a versatile sequence alignment program that aligns DNA or mRNA sequences against a large reference database", documentation: "https://github.com/lh3/minimap2", install: ["cd /opt/biotools/bin/;curl -L https://github.com/lh3/minimap2/releases/download/v2.10/minimap2-2.10_x64-linux.tar.bz2 | tar -jxvf - "], env: "export PATH:'$PATH':/opt/biotools/bin/minimap2-2.10_x64-linux/"}
,{name: "nanopolish", version: "latest", description: "signal-level analysis of Oxford Nanopore sequencing data.", documentation: "https://github.com/jts/nanopolish", install: ["cd /opt/biotools/bin;git clone --recursive https://github.com/jts/nanopolish.git;cd nanopolish;make;"], env: "export PATH='$PATH':/opt/biotools/bin/nanopolish"}
,{name: "nextflow", version: "0.30.1", description: "Data-driven computational pipelines", documentation: "https://www.nextflow.io/", install: ["conda install -c bioconda nextflow=0.30.1"]}
,{ name: "novor", version: "1b", description: "real-time peptide de novo sequencing", documentation: "http://www.rapidnovor.com/", install: ["wget https://github.com/BioDocker/software-archive/releases/download/NovoR/novor_academic_latest.zip -O /tmp/novor_academic_latest.zip \\", "&& unzip /tmp/novor_academic_latest.zip -d /opt/biotools/bin/ \\", "&& bash -c 'echo -e \"#!/bin/bash\\njava -jar /opt/biotools/bin/novor_v1b/lib/novor.jar $@\" > /opt/biotools/bin/novor_1b' && \\", "&& chmod +x /opt/biotools/bin/novor_1b \\", "&& rm -rf /tmp/novor_academic_latest.zip "] }
,{ name: "openms", version: "2.2.0", description: "C++ libraries ans tools for MS/MS data analysis", documentation: "http://ftp.mi.fu-berlin.de/pub/OpenMS/release2.2.0-documentation/html/index.html", install: [] }
,{ name: "pepnovo", version: "20101117", description: "de novo sequencing of low precision MS/MS data", documentation: "http://proteomics.ucsd.edu/Software/PepNovo/", install: ["conda install pepnovo=20101117"] }
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