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CLI for JAWS users

De-novo transcriptome assembly from RNA-seq data using Trinity

Code supporting genome assembly and analysis of small Eukaryotes, fungi, algae, organelles.

metagenome/metatranscriptome assembly and reporting code

The 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.

Configuration for the Chrome extension Proxy SwitchyOmega

Modified CRT-CLI version created for the IMG Annotation Pipeline.

Synthetic biology team's WDL based pipeline for validation of PacBio sequence.

The 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.

Synbio team miseq short read validation.