viral-ngs: command line tools and wrappers for processing raw viral genomic data

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)

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

mapping pipeline for ancient DNA

ZAM: Zero parameter Attention Module

pythonic wrapper for htslib

EE7207 Neural & Fuzzy Systems

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

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 ;)

RNA editing discovery from NGS data.

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

Get sex info from BAM file

Summarize Alignment Pile by Nucleotide

A language model enables accurate structural variant detection in whole-genome amplified long-read sequencing

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