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A CyVerse pipeline for clustering 16S rDNA data.
Run fastq-dump on Stampede2
Hadoop job service
Sequence similarity plots in D3
Node app server for iMicrobe data
General purpose scripts and libraries for iMicrobe.
Demo search for Planet Microbe
Vsearch Singularity container for Stampede
Publish projects to EBI and NCBI
Rust program to count kmer frequencies in each sequence
Stampede app for creating bubble plots from Centrifuge TSV files
Run Centrifuge on Stampede
Mojolicious for muSCOPE
Libraries, data models, scripts for muSCOPE
Stampede2/TACC metaspades app
Use Centrifuge calls to filter sequence (FASTA) into accepted/rejected
All-vs-all sequence comparison for WGS
Singularity container for COMMET
A CyVerse app implementing "Microbial eukaryotic 18S tag-sequence processing/QC - V4 region" from protocols.io.
Determines bacterial genomes from DNA reads then shows gene expression differences from RNA reads
Singularity R image for Rlda
Scripts to load UProC results into the iMicrobe database.
Deep learning demonstration code.
Automated tests for the iMicrobe website.
A CyVerse app to run Prokka.
A CyVerse app for running the MegaHit assembler.