Pinned Repositories
bcbb
Useful bioinformatics code, primarily in Python and R
ggbio
Grid and ggplot2 based visualization for biological data
LabWiki
MLE_THETA
Python Script for Calculating Joint Maximum likelihood estimate of nucleotide polymorphism (theta = (4Nu)) based on number of segregating sites
nessmatcher
Rob Ness' Sequence Adapter Tool
PopGenVCF
PyVCF
A Variant Call Format reader for Python.
RetroSeq
RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference transposable elements. Please read the wiki page (link below) for usage instructions. Also, there is a page on the wiki describing how the 1000 genomes CEU trio was carried out with the files and parameters used for the various steps.
wormtable
Write-once-read-many table for large datasets.
RetroSeq
RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference transposable elements. Please read the wiki page (link below) for usage instructions. Also, there is a page on the wiki describing how the 1000 genomes CEU trio was carried out with the files and parameters used for the various steps.
rwness's Repositories
rwness/nessmatcher
Rob Ness' Sequence Adapter Tool
rwness/MLE_THETA
Python Script for Calculating Joint Maximum likelihood estimate of nucleotide polymorphism (theta = (4Nu)) based on number of segregating sites
rwness/bcbb
Useful bioinformatics code, primarily in Python and R
rwness/ggbio
Grid and ggplot2 based visualization for biological data
rwness/LabWiki
rwness/PopGenVCF
rwness/PyVCF
A Variant Call Format reader for Python.
rwness/RetroSeq
RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference transposable elements. Please read the wiki page (link below) for usage instructions. Also, there is a page on the wiki describing how the 1000 genomes CEU trio was carried out with the files and parameters used for the various steps.
rwness/wormtable
Write-once-read-many table for large datasets.