57 results for “topic:snakemake-pipeline”
A Snakemake workflow to process single samples or cohorts of Illumina paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.
MAGqual is a command line tool to evaluate the quality of metagenomic bins and generate recommended metadata in line with the MIMAG standards
Simple template for running snakemake with R
A comprehensive quality-control and quantification RNA-seq pipeline
A Snakemake workflow to filter, annotate and prepare variant call format (VCF) data for scout using GATK4, SnpSift, VEP and genmod. Designed to be used after human_genomics_pipeline.
Software for RNA-Seq analysis to create sample-specific proteoform databases from RNA-Seq data
Project for apaQTL MS. The workflowr project apaQTL by brimittleman
An awesome Oxford Nanopore Pipeline for direct RNA-sequencing
Snakemake pipeline for analysis and normalization of Hi-C data starting from fastq.gz files. It includes the possibility to perform grouped analyses, TAD, loops and stripes detections, as well as differential compartment and chromatin interaction analyses.
a Snakemake version of distiller - the Open2C Hi-C mapping workflow
NeoGuider, neoepitope detection using advanced feature engineering
A snakemake workflow to perform Alternative Splicing analysis from RNA-Seq with SUPPA2.
population structural variant calling with smoove
Fine mapping analysis within the pQTL pipeline project
No description provided.
Component in the cbs-db multi-repo designed to produce all CTCF Binding Site annotations included in the database.
Short read mapping and variant calling
A small snakemake pipeline to perform quality analysis of RNA-Seq data with FastQC.
🪆🦖 A snakemake wrapper around Nesvilab's FragPipe-CLI. In a perfect world, this pipeline was based on Sage.
Identify and count PacBio Hifi amplicons
A repository for RNA-seq workflow
This repo contains scripts and workflows for performing bulk transcriptomics analyses
Simplified RNA-Seq Insights with automation
pipeline to perform gbs and genetic fitness analysis
Template directory for creating a snakemake pipeline
No description provided.
Work at NIST: snakemake workflow to get short tandem repeats from WGS GIAB samples. R script for downstream processing and concordance
Small snakemake pipeline to explore RNA-Seq data with deepTools.
bacterial strain identification
3' UTR cleavage site identification from the Mouse Cell Atlas