Pinned Repositories
annotateMaf
Add functional variant annotation to MAF file
bam_reducers
Reduce BAM file size by removing tags and quality information (>50 %) and/or downsampling.
biolib
Various python scripts and libraries used for my bioinformatics work.
clustably
Confidence measures for single cell RNA-Seq clusters
cnidariangenomes
Code for the Nematostella Vectensis and Scolanthus Calimorphus genome assembly and analysis
itree
An interval tree data structure suitable for querying sequence features in bioinformatics.
metazoan_synteny
Ancient animal genome architecture reflects cell type identities
moduledev
moduledev is a tool to easily create, edit and manage a repository of environment modules.
pypysam
PyPy-compatible htslib routines for SAM/BAM alignment files
slurm-utils
Some utilities for submitting jobs to SLURM grids in Haskell, because why not.
nijibabulu's Repositories
nijibabulu/cnidariangenomes
Code for the Nematostella Vectensis and Scolanthus Calimorphus genome assembly and analysis
nijibabulu/metazoan_synteny
Ancient animal genome architecture reflects cell type identities
nijibabulu/slurm-utils
Some utilities for submitting jobs to SLURM grids in Haskell, because why not.
nijibabulu/bam_reducers
Reduce BAM file size by removing tags and quality information (>50 %) and/or downsampling.
nijibabulu/itree
An interval tree data structure suitable for querying sequence features in bioinformatics.
nijibabulu/annotateMaf
Add functional variant annotation to MAF file
nijibabulu/clustably
Confidence measures for single cell RNA-Seq clusters
nijibabulu/moduledev
moduledev is a tool to easily create, edit and manage a repository of environment modules.
nijibabulu/BRAKER
nijibabulu/chip_tools
A set of tools for a ChIP analysis pipeline
nijibabulu/ColorTypes.jl
Basic color definitions and traits
nijibabulu/crispr_recall
nijibabulu/CTCAnalysis
nijibabulu/dirtySHAPEMaP
nijibabulu/featureio
nijibabulu/ggbiplot
A biplot based on ggplot2
nijibabulu/JAMM
JAMM Peak Finder for Sequencing Datasets
nijibabulu/lunar
python notebook for lunar data on kaggle
nijibabulu/OrthoFinder
Accurate inference of orthologous gene groups made easy. "OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthologous gene group inference accuracy"
nijibabulu/PASApipeline
PASA software
nijibabulu/python-future
Easy, clean, reliable Python 2/3 compatibility
nijibabulu/quicktools
C tools for manipulating biological sequences and doing quick calculations.
nijibabulu/sjPlot
sjPlot - Data Visualization for Statistics in Social Science
nijibabulu/sra_submissions
nijibabulu/stringdist
String distance functions for R, modified to include affine gap costs
nijibabulu/swim_chip_scripts
nijibabulu/treebest
TreeBeST: Tree Building guided by Species Tree (Ensembl Compara modifications)
nijibabulu/UpSetR
An R implementation of the UpSet set visualization technique published by Lex, Gehlenborg, et al..
nijibabulu/usethis
Set up commonly used 📦 components
nijibabulu/xrrna