Koustav Pal's repositories
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Apache Arrow is a columnar in-memory analytics layer designed to accelerate big data. It houses a set of canonical in-memory representations of flat and hierarchical data along with multiple language-bindings for structure manipulation. It also provides IPC and common algorithm implementations.
bioconda-recipes
Conda recipes for the bioconda channel.
ChIC
ChIC: ChIP-seq quality Control package
distiller-nf
a modular Hi-C mapping pipeline
ember.js
Ember.js - A JavaScript framework for creating ambitious web applications
gexf-js
A JavaScript GEXF viewer
go
The Open Source Data Science Masters
hic
Analysis of Chromosome Conformation Capture data (Hi-C)
HiC_tools
A collection of tools for Hi-C data analysis
jquery
jQuery JavaScript Library
juicebox
Software for visualizing data from Hi-C and other proximity mapping experiments
Juicebox-1
Visualization and analysis software for Hi-C data -
MarkdownLight
Markdown syntax highlighting plugin and color scheme for Sublime Text 3
nf-mappable-coverage
Mappable coverage computation from bed files
nfcore-circrna
circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data
osxfuse
FUSE for OS X extends OS X by adding support for FUSE file systems
personal-puzzles
Some puzzles to keep my mind fresh
rnaseq
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
sigma.js
A JavaScript library dedicated to graph drawing
superSTR
A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.
TADbit
TADbit is a complete Python library to deal with all steps to analyze, model and explore 3C-based data. With TADbit the user can map FASTQ files to obtain raw interaction binned matrices (Hi-C like matrices), normalize and correct interaction matrices, identify and compare the so-called Topologically Associating Domains (TADs), build 3D models from the interaction matrices, and finally, extract structural properties from the models. TADbit is complemented by TADkit for visualizing 3D models