eulertx Goto Github PK

revolver.misc

Data released with the REVOLVER package, example vignettes and case studies.

scage

Profiling epigenetic age in single cells

scimet

scitools

General functions for analyzing combinatorial indexing sequence data

scrnaseq-bladdercancer

Collaboration with David Mulholland at Mount Sinai for invasive Bladder Cancer

scte

sf3b1ness

R package for obtaining SF3B1ness score

shlienlab.core.filter

A R package for filtering somatic mutation data used in the standard production pipeline in the Shlien Lab

single-cell-pseudotime

An overview of algorithms for estimating pseudotime in single-cell RNA-seq data

sinto

Tools for single-cell data processing

smcpp

SMC++ infers population history from whole-genome sequence data.

smurf

Significantly Mutated Region Finder

somalier

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs

somaticsignatures

The SomaticSignatures package offers the framework for identifying mutational signatures of single nucleotide variants (SNVs) from high-throughput experiments.

stochhmm

A Hidden Markov Model Application and C++ Library for Rapid and Flexible Development of HMMs

svaba

Structural variation and indel detection by local assembly

svetect

A tool for identifying and classifying structural rearrangements and chromoplexy from high throughput sequencing data.

tca

tmad

tracksig

A framework to infer mutational signatures in cancer over time

treeomics

Decrypting somatic mutation patterns to reveal the evolution of cancer

tumortype-wgs

Classifying tumor types based on Whole Genome Sequencing (WGS) data

uphyloplot2

Draw phylogenetic trees of tumor evolution

vase

Variant Annotation, Segregation and Exclusion for family or cohort based rare-disease sequencing studies.

vdjdb-db

[VDJDB server is up and running] Git-based TCR database storage & management. Submissions welcome!

viper-rnaseq

vvp-pub

VVP (VAAST Variant Prioritizer) rapidly prioritizes genetic variants

wgbs_tools

tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies

wlmt

xhla_r

xHLA_R : A fork of xHLA made to run in R with batch mode