R package for analyzing single-cell RNA-seq data

Multi-sample somatic variant caller

R package to work with ctDNA sequencing data

Computational Suite for Bioinformaticians and Biologists (CSBB) is a RShiny application developed with an intention to empower researchers from wet and dry lab to perform downstream Bioinformatics analysis

This RNAseq data analysis tutorial is created for educational purpose

RNA-seq, QC and differential analysis pipeline

An R package to process and analyze transcriptomic data

Repository for RecallME-v.0.1 a variant calling pipelines benchmarker and optimizer

Algorithm to implement Fraction and Allelic Copy number Estimate from Tumor/normal Sequencing using unmatched normal sample(s) for log ratio calculations

Conta is an R package to detect cross contamination and source of contamination

A flexible, automation and pragmatic workflow tool to process the NGS data.

Tumor-only variant calling

Algorithm to implement Fraction and Allelic Copy number Estimate from Tumor/normal Sequencing using unmatched normal sample(s) for log ratio calculations

Population Genomics Pipeline used for SNPs data from VCF files.

Some very useful records for me.

SCORE - a consensus tool for detecting differentially expressed genes in bacteria

A QC pipeline for SVs calls based on coverage and SNP calls

AluScanCNV2 is an R package that integrates the cross-platform CNV detection and tumor prediction function on the basis of AluScanCNV software developed in the early stage.

MIRACUM-Pipe is a whole exome and panel sequencing pipeline for precision oncology (https://github.com/AG-Boerries/MIRACUM-Pipe). This repository is a port of the pipeline running inside a singularity container.

Construct a flow to analyze NGS data based on R, Perl, and Python.