snpEff-4.3k-noarch-1_slonly.txz


Advertisement

Description

snpEff - Genetic variant annotation and effect prediction toolbox

Distribution: Slackware 14.2
Repository: Slackonly i486
Package name: snpEff
Package version: 4.3k
Package release: 1_slonly
Package architecture: noarch
Package type: txz
Installed size: 130.21 MB
Download size: 42.23 MB
Official Mirror: packages.slackonly.com
SnpEff is a variant annotation and effect prediction tool. It annotates and predicts the effects of variants on genes (such as amino acid changes). Home: http://snpeff.sourceforge.net/ References: /usr/doc/snpEff-4.3k/References

Alternatives

Requires

    Download

    Source package: unknown

    Install Howto

    1. Download snpEff-4.3k-noarch-1_slonly.txz
    2. Install snpEff txz package:
      # upgradepkg --install-new snpEff-4.3k-noarch-1_slonly.txz

    Files

    • /install/doinst.sh
    • /install/slack-desc
    • /install/slack-required
    • /usr/
    • /usr/bin/
    • /usr/doc/
    • /usr/doc/snpEff-4.3k/References
    • /usr/doc/snpEff-4.3k/snpEff.SlackBuild
    • /usr/share/
    • /usr/share/java/
    • /usr/share/java/snpEff/SnpSift.jar
    • /usr/share/java/snpEff/snpEff.config
    • /usr/share/java/snpEff/snpEff.jar
    • /usr/share/java/snpEff/examples/1kg.head_chr1.filtered.vcf.gz
    • /usr/share/java/snpEff/examples/1kg.head_chr1.vcf.gz
    • /usr/share/java/snpEff/examples/cancer.ann.vcf
    • /usr/share/java/snpEff/examples/cancer.eff.vcf
    • /usr/share/java/snpEff/examples/cancer.vcf
    • /usr/share/java/snpEff/examples/cancer_pedigree.ann.vcf
    • /usr/share/java/snpEff/examples/cancer_pedigree.vcf
    • /usr/share/java/snpEff/examples/example_motif.vcf
    • /usr/share/java/snpEff/examples/examples.sh
    • /usr/share/java/snpEff/examples/file.vcf
    • /usr/share/java/snpEff/examples/intervals.bed
    • /usr/share/java/snpEff/examples/my_annotations.bed
    • /usr/share/java/snpEff/examples/samples_cancer.txt
    • /usr/share/java/snpEff/examples/samples_cancer_one.txt
    • /usr/share/java/snpEff/examples/test.1KG.ann_encode.vcf
    • /usr/share/java/snpEff/examples/test.1KG.ann_reg.vcf
    • /usr/share/java/snpEff/examples/test.1KG.vcf
    • /usr/share/java/snpEff/examples/test.ann.vcf
    • /usr/share/java/snpEff/examples/test.chr22.ann.filter_missense.vcf
    • /usr/share/java/snpEff/examples/test.chr22.ann.filter_missense_any.vcf
    • /usr/share/java/snpEff/examples/test.chr22.ann.filter_missense_any_TRMT2A.vcf
    • /usr/share/java/snpEff/examples/test.chr22.ann.filter_missense_first.vcf
    • /usr/share/java/snpEff/examples/test.chr22.ann.one_per_line.txt
    • /usr/share/java/snpEff/examples/test.chr22.ann.txt
    • /usr/share/java/snpEff/examples/test.chr22.ann.vcf
    • /usr/share/java/snpEff/examples/test.chr22.vcf
    • /usr/share/java/snpEff/examples/test.vcf
    • /usr/share/java/snpEff/examples/variants_1.ann.vcf
    • /usr/share/java/snpEff/examples/variants_1.vcf
    • /usr/share/java/snpEff/examples/variants_2.ann.vcf
    • /usr/share/java/snpEff/examples/variants_2.vcf
    • /usr/share/java/snpEff/galaxy/snpEff.xml
    • /usr/share/java/snpEff/galaxy/snpEffWrapper.pl
    • /usr/share/java/snpEff/galaxy/snpEff_download.xml
    • /usr/share/java/snpEff/galaxy/snpSiftWrapper.pl
    • /usr/share/java/snpEff/galaxy/snpSift_annotate.xml
    • /usr/share/java/snpEff/galaxy/snpSift_caseControl.xml
    • /usr/share/java/snpEff/galaxy/snpSift_filter.xml
    • /usr/share/java/snpEff/galaxy/snpSift_int.xml
    • /usr/share/java/snpEff/galaxy/tool_conf.xml
    • /usr/share/java/snpEff/galaxy/tool_dependencies.xml
    • /usr/share/java/snpEff/galaxy/tool-data/snpEff_genomes.loc
    • /usr/share/java/snpEff/galaxy/tool-data/snpEff_genomes.loc.sample
    • /usr/share/java/snpEff/scripts/1kg.sh
    • /usr/share/java/snpEff/scripts/annotate_demo.sh
    • /usr/share/java/snpEff/scripts/annotate_demo_GATK.sh
    • /usr/share/java/snpEff/scripts/bedEffOnePerLine.pl
    • /usr/share/java/snpEff/scripts/buildDbNcbi.sh
    • /usr/share/java/snpEff/scripts/cgShore.pl
    • /usr/share/java/snpEff/scripts/cgShore.sh
    • /usr/share/java/snpEff/scripts/countColumns.py
    • /usr/share/java/snpEff/scripts/db.pl
    • /usr/share/java/snpEff/scripts/extractSequences.pl
    • /usr/share/java/snpEff/scripts/fasta2tab.pl
    • /usr/share/java/snpEff/scripts/fastaSample.pl
    • /usr/share/java/snpEff/scripts/fastaSplit.pl
    • /usr/share/java/snpEff/scripts/fastqSplit.pl
    • /usr/share/java/snpEff/scripts/filterBy.py
    • /usr/share/java/snpEff/scripts/gffRemovePhase.pl
    • /usr/share/java/snpEff/scripts/isutf8.py
    • /usr/share/java/snpEff/scripts/join.pl
    • /usr/share/java/snpEff/scripts/joinSnpEff.pl
    • /usr/share/java/snpEff/scripts/make_dbNSFP.sh
    • /usr/share/java/snpEff/scripts/nextProt_filter.pl
    • /usr/share/java/snpEff/scripts/ped2vcf.py
    • /usr/share/java/snpEff/scripts/plot.pl
    • /usr/share/java/snpEff/scripts/plotHistogram.pl
    • /usr/share/java/snpEff/scripts/plotLabel.pl
    • /usr/share/java/snpEff/scripts/plotMA.pl
    • /usr/share/java/snpEff/scripts/plotQQ.pl
    • /usr/share/java/snpEff/scripts/plotQQsubsample.pl
    • /usr/share/java/snpEff/scripts/plotSmoothScatter.pl
    • /usr/share/java/snpEff/scripts/plotXY.pl
    • /usr/share/java/snpEff/scripts/queue.pl
    • /usr/share/java/snpEff/scripts/sam2fastq.pl
    • /usr/share/java/snpEff/scripts/snpEff
    • /usr/share/java/snpEff/scripts/snpSift_filter_sample_to_number.pl
    • /usr/share/java/snpEff/scripts/sortLine.py
    • /usr/share/java/snpEff/scripts/splitChr.pl
    • /usr/share/java/snpEff/scripts/statsNum.pl
    • /usr/share/java/snpEff/scripts/swapCols.pl
    • /usr/share/java/snpEff/scripts/transpose.pl
    • /usr/share/java/snpEff/scripts/txt2fa.pl
    • /usr/share/java/snpEff/scripts/txt2vcf.py
    • /usr/share/java/snpEff/scripts/uniqCount.pl
    • /usr/share/java/snpEff/scripts/uniqCut.pl
    • /usr/share/java/snpEff/scripts/vcfAnnFirst.py
    • /usr/share/java/snpEff/scripts/vcfBareBones.pl
    • /usr/share/java/snpEff/scripts/vcfEffHighest.ORI.py
    • /usr/share/java/snpEff/scripts/vcfEffOnePerLine.pl
    • /usr/share/java/snpEff/scripts/vcfFilterSamples.pl
    • /usr/share/java/snpEff/scripts/vcfInfoOnePerLine.pl
    • /usr/share/java/snpEff/scripts/vcfOnlyAlts.pl
    • /usr/share/java/snpEff/scripts/vcfReduceGenotypes.pl
    • /usr/share/java/snpEff/scripts/vcfRefCorrect.py
    • /usr/share/java/snpEff/scripts/wigSplit.pl
    • /usr/share/java/snpEff/scripts/gsa/bayesFactor_correction_scoreCount.r
    • /usr/share/java/snpEff/scripts/gsa/bayesFactor_correction_scoreCount.sh
    • /usr/share/java/snpEff/scripts/gsa/bayesFactor_correction_scoreCount_max10.sh
    • /usr/share/java/snpEff/scripts/gsa/checkGeneNames.py
    • /usr/share/java/snpEff/scripts/gsa/create_sets.bds
    • /usr/share/java/snpEff/scripts/gsa/geneSetOverlap.py
    • /usr/share/java/snpEff/scripts/gsa/geneSetOverlap.sort.txt
    • /usr/share/java/snpEff/scripts/gsa/geneSetsGtex.py
    • /usr/share/java/snpEff/scripts/gsa/pvalue_correction_scoreCount.r
    • /usr/share/java/snpEff/scripts/gsa/pvalue_correction_scoreCount.sh
    • /usr/share/java/snpEff/scripts/gsa/pvalue_correction_scoreCount_min10.sh
    Advertisement
    Advertisement