Rahul Pisupati
rbpisupati
Data Science || Genetics || Quantitative Biology
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Top Repositories
A toolkit for genomics, quantitative genetics
Nextflow pipeline for GATK best practices (HaplotypeCaller)
Required scripts and data for the entire analysis in Pisupati et. al. 2018
Python API for working with genome fasta/bed/annotations
add statistical significance annotations on seaborn plots. Further development of statannot, with bugfixes, new features, and a different API.
Repositories
44Python API for working with genome fasta/bed/annotations
add statistical significance annotations on seaborn plots. Further development of statannot, with bugfixes, new features, and a different API.
No description provided.
Bioinformatics code libraries and scripts
The set of NGS processing pipelines used at Babraham
A toolkit for genomics, quantitative genetics
Statistical Rethinking (2nd ed.) with NumPyro
Nextflow pipeline for GATK best practices (HaplotypeCaller)
Scalable genetics toolkit
PyMC educational resources
The best way we learn anything is by practice and exercise questions. These exercises help you to improve your R programming coding skills
Learn R in simple and easy steps starting from basic to advanced concepts with examples. If you are trying to understand the R programming language as a beginner, this tutorial will give you enough understanding on almost all the concepts of the language from where you can take yourself to higher levels of expertise.
Containerized NextFlow Workflow to Easily Down Sra Files
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Config files for my GitHub profile.
Following along with Statistical Rethinking text on Bayesian modeling by McElreath
Tools for making plots of genomic datasets in a genome-browser-like format
Statistical Rethinking course and book package
Genome-wide Efficient Mixed Model Association
A fast and lightweight python-based linear mixed-model solver for use in genome-wide association studies.
Linear mixed model for genomic analyses.
ViewBS - a powerful toolkit for visualization of high-throughput bisulfite sequencing data
No description provided.
Nextflow pipeline for SNPmatch (https://github.com/Gregor-Mendel-Institute/SNPmatch.git)
A lightweight utility for BS-seq and MethylC-seq data which applies a double-masking procedure on bisulfite alignments, facilitating variant calling with conventional software.
Mixed Model Package For Genome-wide association mapping.
Pipeline to perform local alignments of given sequences to other genomes
Required scripts and data for the entire analysis in Pisupati et. al. 2018
QTL mapping using probabilistic programming (pyTorch and PyRo)
My CV built using RMarkdown and the pagedown package.