edgePython is a Python implementation of the Bioconductor edgeR package for differential analysis of genomics count data. It also includes a new single-cell differential expression method that exte…

a set of SKILLS.md for doing bioinformatics with agents like claude code

Single-Sample Predictors for Breast Cancer (sspbc) include functions and models to assign classes to breast cancer samples using gene expression data.

Functions to train AIMS' like models

A tool for blocking mechanical keyboard chattering on Linux

Python (PyTorch) realization of Deep Feature Selection (Model, Algorithm)

Gene Set Enrichment Analysis in Python

A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution methods

Cell types enrichment analysis

A tool to find sequencing data and metadata from public databases.

Highly accurate cell type proportion estimation with in silico data augmentation and deep neural networks

fuzzy fusion finder

A p-value-free method for controlling false discovery rates in high-throughput biological data with two conditions

📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.

Cluster Identity Predictor (R package implementation)

Clone of the Bioconductor repository for the SingleR package.

Evaluation of Cell Type Annotation R Packages on Single Cell RNA-seq Data

Python code for genetic marker selection using linear programming

An experimental tool to estimate the similarity between all pairs of contigs

Compressor for Nanopore Sequencing Reads

Python implementation of Lloyd-Max quantizer.

BigWig and BAM utilities

CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.

Highly parallel, GPU-accelerated hybrid mergesort with mmap'd IO

What the f*ck Python? 😱

Fast multi-line FASTA/Q reader in several programming languages

Web application to explore the Sequence Read Archive.