souryacs Goto Github PK

3cexpr

Predicting gene Expression from chromatin conformation capture (3C)

acrnjxl

Species tree estimation using accumulated coalescence rank and excess gene leaves count

atacproc

ATAC-seq processing pipeline

bulkrnaseq

Scripts for bulk RNA-seq analysis

chipline

ChIP-seq analysis pipeline

colocalization

Co-localization analysis between reference GWAS and eQTL summary statistics

cospedbtree

COSPEDTree-II: Improved couplet based phylogenetic supertree

cospedspec

Species tree estimation using couplet supertree technique

cospedtree

COuplet based Phylogenetic Supertree algorithm, using Equivalence partitioning and DAG formation

cospedtree-ii

Couplet Supertree construction (an improved version of COSPEDTree package)

cospedtreebl

COSPEDTree with branch length assignment, using weighted input trees

cstbl

Branch Length assignment to a Custom input SuperTree topology, given a set of input weighted (with branch lengths) phylogenetic trees

dice_covid-19_gwas_study

dlwpt-code

Code for the book Deep Learning with PyTorch by Eli Stevens, Luca Antiga, and Thomas Viehmann.

fastbook

The fastai book, published as Jupyter Notebooks

finemap

fithic

Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture assays such as Hi-C.

fithichip

Statistically Significant loops from HiChIP data

idxl

Species tree estimation using Internode Distance and eXcess Lineage

iqtl

Interaction QTL (IQTL) using HiChIP contacts

litrevw

Literature Review

multiomedata

pieqtl_ng

s_ldsc_snp

Stratified LD score regression analysis

scrnaseq

Single cell RNA-seq analysis

scvi-tools

Deep probabilistic analysis of single-cell omics data

souryacs

Config files for my GitHub profile.

star_glass_steac_njst

Implements species tree construction from incongruent gene trees with Incomplete Lineage Sorting (ILS) using a variety of existing methods - 1) STAR 2) STEAC (Liu et. al. 2009), 3) GLASS (Roch et. al. 2010), 4) NJ-st (Liu et. al. 2011)