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Advanced Analysis / JAWS / jaws-client
Lawrence Berkeley National Labs BSD variant licenseCLI for JAWS users
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De-novo transcriptome assembly from RNA-seq data using Trinity
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Code supporting genome assembly and analysis of small Eukaryotes, fungi, algae, organelles.
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IMG / IMG Pipelines / IMG Annotation Pipeline
GNU General Public License v3.0 onlyThe IMG Annotation Pipeline (IMGAP) is used for structural and functional annotation of prokaryotic genomes, metagenomes and metatranscriptomes submitted to the DOE Joint Genome Institute's IMG system.
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Simon Roux / SpacerExtractor
GNU General Public License v3.0 or laterUpdated -
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Uri Neri / RolyPoly
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Luiz Carlos Irber Junior / BER branchwater PoC
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Configuration for the Chrome extension Proxy SwitchyOmega
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IMG / IMG Pipelines / CRT-CLI - IMGAP Version
Lawrence Berkeley National Labs BSD variant licenseModified CRT-CLI version created for the IMG Annotation Pipeline.
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JGI Synbio Public / synbioqc-pbj
Lawrence Berkeley National Labs BSD variant licenseSynthetic biology team's WDL based pipeline for validation of PacBio sequence.
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JGI Synbio Public / synbioqc-dual_barcode
Lawrence Berkeley National Labs BSD variant licenseThe synbioqc-pbj pipeline altered for running the qc pipeline on reference sequences that have been barcoded prior to the PacBio barcoding and adapter additions, so these must be demultiplexed prior to the qc analysis.
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JGI Synbio Public / synbioqc-libqc
Lawrence Berkeley National Labs BSD variant licenseSynbio team miseq short read validation.
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