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Various algorithms for analysing genomics data
Somatic structural variant caller for long-read data
DeMethify is a partial-reference based methylation deconvolution algorithm that uses a weighted constrained version of an iteratively optimized negative matrix factorization algorithm.
A tool for detecting somatic variants in single cell data
Somatic copy number analysis using WGS paired end wholegenome sequencing
Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
Script to automatically create and run IGV snapshot batchscripts
Molecular standardisation tool
A mosaic detecting software based on phasing and random forest
I categorize, annotate and write comments for all research papers I read (410+ papers since 2018).
Implementations of various VAE-based semi-supervised and generative models in PyTorch
Official Python client for accessing ChEMBL API
Htmlwidgets binding R commands to the BioCircos.js library
Python package and routines for merging VCF files
Google Charts bindings for the Shiny web framework for R
A 3D genome data processing tutorial for ISMB/ECCB 2017
Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data
Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ …
Clodius is a tool for breaking up large data sets into smaller tiles that can subsequently be displayed using an appropriate viewer.
Fast, flexible and extensible genome browser.
EMSAR quantifies transcripts from RNA-seq data (Citation : Lee et al., BMC Bioinformatics 2015, 16:278, http:https://www.biomedcentral.com/1471-2105/16/278)
A python library for single cell whole-genome sequencing quality evaluation
Software program for checking sample matching for NGS data
AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and elucidates the architecture of the amplicon. In the current …