DaehwanKimLab / tophat
Spliced read mapper for RNA-Seq
☆92Updated last year
Alternatives and similar repositories for tophat:
Users that are interested in tophat are comparing it to the libraries listed below
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆157Updated 2 years ago
- HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.☆124Updated 5 years ago
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆215Updated 9 months ago
- A tool set for short variant discovery in genetic sequence data.☆196Updated 3 years ago
- VarDict☆198Updated last year
- Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data☆209Updated 4 years ago
- Bioconductor package "ballgown", devel version. Isoform-level differential expression analysis in R.☆146Updated 3 years ago
- ☆82Updated 6 years ago
- A flexible framework for rapid genome analysis and interpretation☆316Updated 2 years ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆316Updated 10 months ago
- BEDOPS: high-performance genomic feature operations☆327Updated 2 weeks ago
- Text Only Genome Viewer!☆221Updated 2 weeks ago
- Count bases in BAM/CRAM files☆315Updated 3 years ago
- Quick mining and visualization of NGS data by integrating genomic databases☆264Updated last year
- C++ API & command-line toolkit for working with BAM data☆424Updated 9 months ago
- a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads☆220Updated 3 years ago
- Reads simulator☆274Updated 3 years ago
- Read trimming tool for Illumina NGS data.☆134Updated 10 years ago
- SV detection from paired end reads mapping☆117Updated 5 years ago
- GATK RNA-Seq Variant Calling in Nextflow☆133Updated 2 years ago
- tools for adding mutations to existing .bam files, used for testing mutation callers☆240Updated 6 months ago
- ☆269Updated 2 months ago
- A short tutorial on how to use RSEM☆136Updated 5 years ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆375Updated last year
- UCSC command line bioinformatic utilities☆177Updated 8 months ago
- AQUAS TF and histone ChIP-seq pipeline☆108Updated 2 years ago
- Plugins for the Ensembl Variant Effect Predictor (VEP)☆146Updated last week
- Workflows for germline short variant discovery with GATK4☆135Updated 3 years ago
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆159Updated 8 months ago
- Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …☆167Updated 5 years ago