Pinned Repositories
app_service
Application execution service.
asw_learn
For teaching git
aswarren.github.io
aswarren site
Batch-Fasta-Interpro
Run interproscan on a multi-sequence fasta file via EBI webservices.
bionetworks-1
Models and code for bionetworks synethesis
biopython
Official git repository for Biopython (converted from CVS)
bvbrc_grab_features
Given genome ids get the associated protein features using the BVBRC API
bvbrc_metacats
bvbrc_rnaseq
pangenome_graphs
Constructing pan genome graphs from "protein family" assignments
aswarren's Repositories
aswarren/biopython
Official git repository for Biopython (converted from CVS)
aswarren/cufflinks
aswarren/gexf-js
A JavaScript GEXF viewer
aswarren/gexfd3
A small library for rendering parsed GEXF graphs in D3.js
aswarren/gffutils
GFF and GTF file manipulation and interconversion
aswarren/go-site
A collection of metadata, tools, and files associated with the Gene Ontology public web presence.
aswarren/goatools
Python scripts to find enrichment of GO terms
aswarren/GOGranny
A python library for representing and using the Gene Ontology
aswarren/grc
The Genome Reverse Compiler (GRC) is an automated annotation tool designed for prokaryotic genomes.
aswarren/GTF-to-Operon
Combines existing annotation with GTF Transcript assembly by Cufflinks.
aswarren/msa
Modular BioJS compoment for a multiple sequence alignment
aswarren/msa-test
Simple html page for testing side by side msa tree. Needs biojs: msa, msa-tnt, and biojs-io-newick
aswarren/msa-tree
A modular combination of MSA viewer and phylogenetic tree viewer
aswarren/my_python
aswarren/p3_docs
This repository is for manage PATRIC static contents such as Website Tutorial, CLI Tutorial, User Guides, and PATRIC eNews.
aswarren/p3_trees
aswarren/p3_trees-1
to implement deployment structures around newly generated trees for display on the site
aswarren/p3api
p3api dev
aswarren/pangenome_examples
GEXF example files of pan-genome graphs
aswarren/pangenome_layout
Layout pangenome graphs using gephi toolkit
aswarren/patric_solr_export
Temporary export of solr schema for sharing. WARNING: could be out of date
aswarren/pg-graph-server
Web server for creating pan-genome graphs
aswarren/Rockhopper
For computational analysis of bacterial RNA-seq data
aswarren/sars2_assembly
aswarren/setup-scripts
scripts for custom build enviorments
aswarren/sra_import_orig
SRA import for PATRIC
aswarren/stringtie
Transcript assembly and quantification for RNA-Seq
aswarren/TrimGalore
A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data
aswarren/wasabi-app
Automatically exported from code.google.com/p/wasabi-app
aswarren/wasabi-patric
wasabi msa viewer