virajbdeshpande / AmpliconArchitectLinks
AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and elucidates the architecture of the amplicon. In the current version, AA takes as input next generation sequencing reads (paired-end Illumina reads) mapped to the hg19/GRCh37 reference sequence and one or more…
☆155Updated last year
Alternatives and similar repositories for AmpliconArchitect
Users that are interested in AmpliconArchitect are comparing it to the libraries listed below
Sorting:
- tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies☆171Updated 5 months ago
- A short tutorial on how to use RSEM☆138Updated 5 years ago
- WGBS/NOMe-seq Data Processing & Differential Methylation Analysis☆146Updated 2 years ago
- SEACR: Sparse Enrichment Analysis for CUT&RUN☆115Updated 2 years ago
- ☆153Updated 5 months ago
- ☆116Updated 2 years ago
- Check strandedness of RNA-Seq fastq files☆127Updated 3 years ago
- Microsatellite instability (MSI) detection for tumor only data.☆110Updated last year
- ASCAT R package☆189Updated last month
- ☆120Updated 2 years ago
- Fast alignment and preprocessing of chromatin profiles☆206Updated last month
- ENCODE Uniform processing pipeline for ChIP-seq☆123Updated 5 years ago
- Detecting sites of genomic enrichment☆195Updated 2 years ago
- Software program for checking sample matching for NGS data☆137Updated last year
- a snakemake pipeline to process ChIP-seq files from GEO or in-house☆110Updated 5 years ago
- RNA-Seq analysis workflow☆105Updated 4 years ago
- Finder of Somatic Fusion Genes in RNA-seq data☆147Updated last month
- An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)☆118Updated 3 weeks ago
- A package for including transposable elements in differential enrichment analysis of sequencing datasets.☆266Updated last month
- ☆156Updated 2 years ago
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆172Updated last year
- A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …☆72Updated last week
- circular RNA analysis toolset☆85Updated last year
- STAR based ENCODE Long RNA-Seq processing pipeline☆95Updated 4 years ago
- fork of RSeQC python RNAseq metrics suit of tools☆49Updated 6 years ago
- Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.☆190Updated last year
- Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders☆155Updated this week
- REDItools are python scripts to investigate RNA editing at genomic scale.☆68Updated 3 months ago
- Fast and accurate in silico inference of HLA genotypes from RNA-seq☆146Updated last year
- “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau☆189Updated 5 years ago