a pytorch lib with state-of-the-art architectures, pretrained models and real-time updated results

Viral genomics analysis pipelines

Simple pure Python SAM parser and objects for working with SAM records

Frequently used commands in bioinformatics

My bioinfo toolbox

pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)

mapping pipeline for ancient DNA

ZAM: Zero parameter Attention Module

pythonic wrapper for htslib

EE7207 Neural & Fuzzy Systems

Subset of fast5 files contained in a fastq, BAM, or SAM file.

Implementation of BAM: Bottleneck Attention Module with TensorFLow

General purpose tools for every-day sequencing bioinformatics. If you use any of these tools, please acknowledge this repository (there are no publications). Let's all help each other ;)

Workflow to Fetch Public Sequencing Data and Metadata Using iSeq and MrBiomics Module.

Get the consensus sequences from SAM (and BAM) files, ignoring the reference

RNA editing discovery from NGS data.

Get sex info from BAM file

Summarize Alignment Pile by Nucleotide

A universal model datastructure for design, analysis, fabrication, and construction

Python implementation to calc mappability-sensitive cross-correlation for fragment length estimation and quality control for ChIP-Seq.