https://github.com/animesh/pmartr
The pmartR R package provides functionality for quality control, normalization, exploratory data analysis, and statistical analysis of mass spectrometry (MS) omics data, in particular proteomic (either at the peptide or the protein level), lipidomic, and metabolomic data.
https://github.com/animesh/pyopenms_viz
Streamlining Mass Spectrometry Data Visualization with Pandas
https://github.com/animesh/cascadia
Transformer deep learning model for de novo sequencing of data-independent acquisition mass spectrometry data
https://github.com/animesh/chrybn
Reproduce Karmin et al A recent bottleneck of Y chromosome diversity coincides with a global change in culture
https://github.com/animesh/sarek
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
https://github.com/animesh/fuzzylife
Life is Fuzzy, lets try to deFuzzyify, Bit by bIT
https://github.com/animesh/meditron
Meditron is a suite of open-source medical Large Language Models (LLMs).
https://github.com/animesh/rnaseq_nextflow
RNA-seq analysis with nextflow, bulk transcriptomics as simple as it can get without compromising quality
https://github.com/animesh/sage
Proteomics search & quantification so fast that it feels like magic
https://github.com/animesh/prolfqua
R package for protein differential expression analysis
https://github.com/animesh/awesome-multi-omics
List of software packages for multi-omics analysis
https://github.com/animesh/simpsonsparadox
Function for automatically detecting Simpson's Paradox