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15 search results found

Sigprofilerextractor ⭐ 132

SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.

NMF: A Flexible R package for Nonnegative Matrix Factorization

NeoDTI: Neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions

Bayesian MCMC matrix factorization algorithm

Stratipy ⭐ 29

Graph regularized nonnegative matrix factorization (GNMF) in Python

Ngstools ⭐ 23

My own tools code for NGS data analysis (Next Generation Sequencing)

GEDFN: Graph-Embedded Deep Feedforward Network

Helmsman ⭐ 19

highly-efficient & lightweight mutation signature matrix aggregation

Cbioinfcpp 0 ⭐ 12

The lib CBioInfCpp.h contains 3 groups of functions for C++: "Input-Output", "Working with strings", "Working with graphs". Data structures "Adjacency vector" and "Adjacency map" are implemented in the last one (i.e. in "Working with graphs"). See About_CBioInfCpp for details.

Phylogenetics ⭐ 11

Algorithms and datastructures for phylogenetics

Compute a pairwise SNP distance matrix from one or two alignment(s)

A collection of Python modules equivalent to R ReQTL Toolkit aims to identify the association between expressed SNVs with their gene expression using RNA-sequencing data.

PepTools - An Immunoinformatics (Immunological Bioinformatics) R-package for working with peptide data

A reference-based solution for single-cell analysis

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