Pinned Repositories
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.
Convert2MP3
Scripts to convert audio files to mp3
gb2ptt
Convert a Genbank flat file to an NCBI ptt file
MutMap
Scripts to faciliate the MutMap protocol.
RNA-Seq-Toolkit
Resources that facilitate and automate the analysis of RNA-Seq data
sgivan's Repositories
sgivan/gb2ptt
Convert a Genbank flat file to an NCBI ptt file
sgivan/RNA-Seq-Toolkit
Resources that facilitate and automate the analysis of RNA-Seq data
sgivan/bioperl-dev
Experimental (developer-only) BioPerl Code
sgivan/BGA
Automated Bacterial Genome Annotation (BGA).
sgivan/Convert2MP3
Scripts to convert audio files to mp3
sgivan/MutMap
Scripts to faciliate the MutMap protocol.
sgivan/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/
sgivan/audprocess
Set of scripts to convert audio file formats, bit densities and sampling frequencies.
sgivan/clusterblast
Tools for running and parsing emabarrasingly parallel NCBI BLAST jobs
sgivan/cog_content
Scipts to generate web content related to a custom Cluster of Orthologous Genes database.
sgivan/COGDB
Perl scripts and libraries to interact with a custom Cluster of Orthologous Genes (COG) database.
sgivan/ContainerRecipes
sgivan/directoryScrub
Perl script to remove old files from directories.
sgivan/fasta_to_fastq
Scripts to create fastq and Phred-style quality files for a fasta file.
sgivan/jobQ
A set of perl modules to manage a job queue.
sgivan/MakeSpace
Series of scripts to recover file space by compressing a variety of file types encountered in Next-Gen sequence analysis.
sgivan/my-python-template
sgivan/NGScripts
A variety of scripts useful when working with NGS data and genome assemblies created with NGS data.
sgivan/optiCAP3
Script to use clipping information to include more sequences in a cap3 DNA assembly.
sgivan/paintomics_parse
sgivan/PhyloSeqs
Tools to create sequence databases for specific phyolgenetic groups.
sgivan/pick_transcripts
Pick longest transcript from several alternatively splice variants based on evolutionary conservation
sgivan/ping_track
Script to generate network status with ping
sgivan/QuantDisplay
Display Quantitative Data in Gbrowse
sgivan/rnaseq_workflow
snakemake workflow for bulk RNA-seq workflow using STAR-edgeR
sgivan/spreadsheet-writeexcel
Perl module to write Excel binary files
sgivan/summarize-contigs
Parse and summarize mummer output to tally SNPs and Indels
sgivan/symlinker
Script to create a directory structure of symlinks to another directory structure.
sgivan/taxonomy_summary
Script to summarize the taxonomy content of a list of NCBI gene ID's
sgivan/WGCNA_scripts
scripts to parse and reformat WGCNA output files