A collection of Python modules equivalent to R ReQTL Toolkit aims to identify the association between expressed SNVs with their gene expression using RNA-sequencing data.

parser para planillas excel, sobre cargado de potenciales casos covid

Codes for genome sequencing class being taught by Tychele N. Turner, Ph.D.

This is the github repository for the Eichler lab Amazon Web Services (AWS) pipelines

Filters for Next Generation Sequencing

Pipelines for SNVs and InDels calling (single sample and joint) in WEGS, WGS, and WES using GATK.

A somatic mutation signature simulator

Determine read depth and variant frequency thresholds to distinguish NGS sequencing errors from true SNPs. Simulates effect of changing per-site read depth and variant frequency on accuracy of genetic diversity measures (pi, alterante allele frequency, shannon diversity).

Detect and phase minor SNVs from long-read sequencing data

SNV calling workflow

This repository will house the scripts used to analyze and represent genomic and temperature data for my dissertation.

A collection of software to work with genomic variants

Pipeline to call SNV's with 4 tools (VarDict, LoFreq, Mutect2 & SiNVICT)

Scripts used in MDV project

Codes for exome sequencing class being taught by Tychele N. Turner, Ph.D.

A snakemake pipeline that performs variant calling of Nanopore reads from FastQ files for non-model organisms

ClairS-TO - a deep-learning method for tumor-only somatic variant calling

Nextflow version of SNVPhyl

ClairS - a deep-learning method for long-read somatic small variant calling

A method for variant graph genotyping based on exact alignment of k-mers