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ansible

Ansible is a radically simple IT automation platform that makes your applications and systems easier to deploy. Avoid writing scripts or custom code to deploy and update your applications — automate in a language that approaches plain English, using SSH, with no agents to install on remote systems. https://docs.ansible.com/ansible/

audprocess

Set of scripts to convert audio file formats, bit densities and sampling frequencies.

bga

Automated Bacterial Genome Annotation (BGA).

bioperl-dev

Experimental (developer-only) BioPerl Code

clusterblast

Tools for running and parsing emabarrasingly parallel NCBI BLAST jobs

cog_content

Scipts to generate web content related to a custom Cluster of Orthologous Genes database.

cogdb

Perl scripts and libraries to interact with a custom Cluster of Orthologous Genes (COG) database.

containerrecipes

convert2mp3

Scripts to convert audio files to mp3

directoryscrub

Perl script to remove old files from directories.

fasta_to_fastq

Scripts to create fastq and Phred-style quality files for a fasta file.

gb2ptt

Convert a Genbank flat file to an NCBI ptt file

jobq

A set of perl modules to manage a job queue.

makespace

Series of scripts to recover file space by compressing a variety of file types encountered in Next-Gen sequence analysis.

mutmap

Scripts to faciliate the MutMap protocol.

my-python-template

ngscripts

A variety of scripts useful when working with NGS data and genome assemblies created with NGS data.

opticap3

Script to use clipping information to include more sequences in a cap3 DNA assembly.

paintomics_parse

phyloseqs

Tools to create sequence databases for specific phyolgenetic groups.

pick_transcripts

Pick longest transcript from several alternatively splice variants based on evolutionary conservation

ping_track

Script to generate network status with ping

quantdisplay

Display Quantitative Data in Gbrowse

rna-seq-toolkit

Resources that facilitate and automate the analysis of RNA-Seq data

rnaseq_workflow

snakemake workflow for bulk RNA-seq workflow using STAR-edgeR

spreadsheet-writeexcel

Perl module to write Excel binary files

summarize-contigs

Parse and summarize mummer output to tally SNPs and Indels

symlinker

Script to create a directory structure of symlinks to another directory structure.

taxonomy_summary

Script to summarize the taxonomy content of a list of NCBI gene ID's

wgcna_scripts

scripts to parse and reformat WGCNA output files