cbg-ethz / NGS-pipeLinks
NGS-pipe: next-generation sequencing pipelines for precision oncology
☆113Updated 6 years ago
Alternatives and similar repositories for NGS-pipe
Users that are interested in NGS-pipe are comparing it to the libraries listed below
Sorting:
- GATK RNA-Seq Variant Calling in Nextflow☆134Updated 2 years ago
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆77Updated 5 years ago
- RNA-Seq analysis workflow☆104Updated 4 years ago
- Copy number calling and variant classification using targeted short read sequencing☆137Updated 3 months ago
- a snakemake pipeline to process ChIP-seq files from GEO or in-house☆109Updated 5 years ago
- Learning the Variant Call Format☆142Updated this week
- Software program for checking sample matching for NGS data☆134Updated last year
- Documentation and description of AWS iGenomes S3 resource.☆114Updated 8 months ago
- Relevant papers for CNV and SV approaches☆94Updated 9 months ago
- Finder of Somatic Fusion Genes in RNA-seq data☆146Updated 2 years ago
- Workflows for converting between sequence data formats☆38Updated 3 years ago
- Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.☆149Updated 2 years ago
- Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.☆131Updated 11 months ago
- microRNA profiling pipeline☆79Updated 3 years ago
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆147Updated 4 years ago
- AQUAS TF and histone ChIP-seq pipeline☆109Updated 3 years ago
- A small-RNA sequencing analysis pipeline☆89Updated 2 months ago
- Analysis pipeline for the GUIDE-seq assay.☆78Updated 2 years ago
- Microsatellite instability (MSI) detection for tumor only data.☆108Updated last year
- An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)☆116Updated 6 months ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆97Updated 4 years ago
- csf fork of fastqc for usage on selected reads of unaligned bam file☆48Updated 12 years ago
- Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.☆51Updated 6 years ago
- Snakefiles for common RNA-seq data analysis workflows (STAR and Kallisto).☆93Updated 8 years ago
- Script to automatically create and run IGV snapshot batchscripts☆141Updated 2 years ago
- STAR based ENCODE Long RNA-Seq processing pipeline☆95Updated 4 years ago
- TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files☆131Updated last year
- Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …☆222Updated last year
- A short tutorial on how to use RSEM☆137Updated 5 years ago
- Characterization of Germline variants☆98Updated 3 years ago