Deepvariant Alternatives

scanpy

Single-cell analysis in Python. Scales to >100M cells.

slivar

genetic variant expressions, annotation, and filtering for great good.

galaxy

Data intensive science for everyone.

af2complex

Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.

ariba

Antimicrobial Resistance Identification By Assembly

mirdeep2

Discovering known and novel miRNAs from small RNA sequencing data

SigProfilerExtractor

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.

bioinformatics

Bioinformatic algorithms for the UCLA Bioinformatics Specialization (by ashinzekene)

masurca

openMotor

An open-source internal ballistics simulator for rocket motor experimenters