biowdl / RNA-seq
A BioWDL pipeline for processing RNA-seq data, starting with FASTQ files to produce expression measures and VCFs. Category:Multi-Sample
☆31Updated 2 years ago
Alternatives and similar repositories for RNA-seq:
Users that are interested in RNA-seq are comparing it to the libraries listed below
- A whole genome bisulfite sequencing (WGBS) pipeline for the alignment and QC of DNA methylation that goes from from raw reads (FastQ) to …☆23Updated 3 years ago
- R package for inferring copy number from read depth☆32Updated 2 years ago
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- The Zavolab Automated RNA-seq Pipeline☆35Updated this week
- Repository for the Anczukow-Lab splicing pipeline☆15Updated last month
- gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…☆33Updated 3 years ago
- Tool for RNA-Seq analysis.☆38Updated 3 years ago
- ☆33Updated 2 years ago
- Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets☆37Updated 4 years ago
- Tutorial for STAR-Fusion, FusionInspector, and de novo reconstruction of fusion transcripts using Trinity☆14Updated 5 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆42Updated 3 years ago
- RNA-seq workflow: differential transcript usage☆21Updated last year
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- Comprehensive analysis of small RNA sequencing data☆31Updated 10 months ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 7 years ago
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆44Updated 2 years ago
- Pipeline for identifying viral integration and fusion mRNA reads from NGS data. Manuscript is currently in preparation.☆27Updated 3 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆35Updated last year
- Merge fastq files split over lanes☆20Updated 7 years ago
- Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses☆31Updated 3 years ago
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆35Updated 3 years ago
- ONCOCNV - a package to detect copy number changes in Targeted Deep Sequencing and Exome-seq data☆25Updated 2 years ago
- Differential ATAC-seq toolkit☆27Updated last year
- Genomic data interpretation and visualization Workshop☆19Updated last year
- Python module and utility programs for working with GFF files☆32Updated 4 years ago
- Tutorials covering various topics in genomic data analysis.☆16Updated 6 years ago
- chimeraviz is an R package that automates the creation of chimeric RNA visualizations.☆37Updated last year
- Codes and Data for FFPEsig manuscript☆16Updated last year
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago