Pinned Repositories
anccomp
Identification of functional genetic loci
ArayProbeCollapse
Collapse microarray data
ArrayProbeCollapse
Collapse microarray data
asr-pipeline
A software pipeline for aligning sequences, inferring ML phylogenies, reconstructing ancestors, and more
bedgraph2wig
Convert BED graph files into wiggle tracks (WIG). This allows genome sequencing data to be viewed as WIG files within MochiView.
chipseqbot
A Web Application that Automates ChIP-Seq Analysis
fogasr
An ancestral analysis of the sequences analyzed previously by Fungal Orthogroups
phylobot-django
PhyloBot is a Django web application for composing, running, and viewing PhyloBot jobs.
prob_motif
What is the probability of a cis-regulatory motif occurring by chance?
simgenome
SimGenome is a quantitative model of gene transcription regulatory circuit evolution. SimGenome incorporates three major aspects of this process: (i) DNA-binding thermodynamics, (ii) non-equilibrium gene expression patterns, and (iii) population structure and evolution.
vhsvhs's Repositories
vhsvhs/phylobot-django
PhyloBot is a Django web application for composing, running, and viewing PhyloBot jobs.
vhsvhs/asr-pipeline
A software pipeline for aligning sequences, inferring ML phylogenies, reconstructing ancestors, and more
vhsvhs/anccomp
Identification of functional genetic loci
vhsvhs/simgenome
SimGenome is a quantitative model of gene transcription regulatory circuit evolution. SimGenome incorporates three major aspects of this process: (i) DNA-binding thermodynamics, (ii) non-equilibrium gene expression patterns, and (iii) population structure and evolution.
vhsvhs/prob_motif
What is the probability of a cis-regulatory motif occurring by chance?
vhsvhs/ArayProbeCollapse
Collapse microarray data
vhsvhs/ArrayProbeCollapse
Collapse microarray data
vhsvhs/bedgraph2wig
Convert BED graph files into wiggle tracks (WIG). This allows genome sequencing data to be viewed as WIG files within MochiView.
vhsvhs/chipseqbot
A Web Application that Automates ChIP-Seq Analysis
vhsvhs/fogasr
An ancestral analysis of the sequences analyzed previously by Fungal Orthogroups
vhsvhs/lazarus
vhsvhs/ndt80-chipseq-em
vhsvhs/phylowidgets
A collection of Python-based widgets for manipulating sequence alignments, phylogenies, and reconstructed ancestors.
vhsvhs/ratflic
Reconstructing ancestors to find functional loci in cancer
vhsvhs/SeqTools
Tools for analyzing high-throughput sequencing data
vhsvhs/trna_evo
This is analysis pipeline used to make Figure 3 in [Yona, Bloom-Ackerman, et al., eLife 2013], available at this URL: [http://www.ncbi.nlm.nih.gov/pubmed/24363105]. This project analyzes the evolution of tRNAs, from across the tree of life. How prevalent is anticodon switching?