DaehwanKimLab / tophatLinks
Spliced read mapper for RNA-Seq
☆92Updated 2 years ago
Alternatives and similar repositories for tophat
Users that are interested in tophat are comparing it to the libraries listed below
Sorting:
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆163Updated 2 years ago
- SV detection from paired end reads mapping☆117Updated 6 years ago
- BEDOPS: high-performance genomic feature operations☆351Updated 4 months ago
- UCSC command line bioinformatic utilities☆185Updated last year
- Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …☆174Updated 5 years ago
- A tool set for short variant discovery in genetic sequence data.☆201Updated 4 years ago
- Plugins for the Ensembl Variant Effect Predictor (VEP)☆157Updated 3 weeks ago
- VarDict☆198Updated last year
- HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.☆126Updated 5 years ago
- Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data☆212Updated 5 years ago
- Finder of Somatic Fusion Genes in RNA-seq data☆147Updated last week
- miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.☆182Updated 6 years ago
- Bioconductor package "ballgown", devel version. Isoform-level differential expression analysis in R.☆148Updated 4 years ago
- GATK RNA-Seq Variant Calling in Nextflow☆136Updated 2 years ago
- Documentation and description of AWS iGenomes S3 resource.☆116Updated 9 months ago
- NGS-pipe: next-generation sequencing pipelines for precision oncology☆114Updated 6 years ago
- tools for adding mutations to existing .bam files, used for testing mutation callers☆244Updated 11 months ago
- Fast, efficient RNA-Seq metrics for quality control and process optimization☆174Updated 10 months ago
- Software program for checking sample matching for NGS data☆135Updated last year
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory.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
- Count bases in BAM/CRAM files☆317Updated 3 years ago
- MuTect -- Accurate and sensitive cancer mutation detection☆100Updated 2 years ago
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆241Updated 2 months ago
- Interval data structure☆235Updated 9 months ago
- samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.☆233Updated 4 years ago
- Biopieces is a bioinformatic framework of tools easily used and easily created.☆142Updated 7 years ago
- Web application to explore the Sequence Read Archive.☆217Updated 2 months ago
- Tools for processing and analyzing structural variants.☆154Updated 3 years ago
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆170Updated last year
- Small utilities for working with fastq sequence files.☆123Updated 2 years ago