xguse / blacktie
Blacktie: a streamlined interface to the popular tophat/cufflinks RNA-seq pipeline
☆26Updated 9 years ago
Alternatives and similar repositories for blacktie:
Users that are interested in blacktie are comparing it to the libraries listed below
- Benchmarks for RNA-seq quantification pipelines☆8Updated 5 years ago
- Mostly deprecated in favor of : https://github.com/hbc/bcbioRNASeq. Quality control, differential gene/transcript expression and pathway …☆24Updated 7 years ago
- Hotspot is a program for identifying genomic regions of local enrichment of short-read sequence tags.☆14Updated 10 years ago
- R package to quickly obtain count vectors from indexed bam files☆15Updated 3 years ago
- Modeling and correcting fragment sequence bias for RNA-seq☆24Updated 9 months ago
- Improved multi-sample transcript abundance estimates using adaptive priors☆20Updated 6 years ago
- ☆12Updated 3 months ago
- A tool for Read Multi-Mapper Resolution☆23Updated 8 years ago
- ☆12Updated 3 months ago
- Chromatin segmentation in R☆19Updated 7 years ago
- A tool to examine duplicate read characteristics in a BAM file☆12Updated 7 years ago
- A python script used to annotate genomic intervals.☆18Updated 4 years ago
- IndexTools is a toolkit for extremely fast NGS analysis based on index files.☆17Updated 2 years ago
- RNA-seq quantifications: gene expression responses to human rhinovirus infection for 6 asthmatic and 6 non-asthmatic donors (SRP046226)☆19Updated 7 years ago
- Correctly counting molecules using unique molecular identifiers (UMIs)☆9Updated 3 years ago
- Scripts for reproducing analyses of large RNA-seq datasets☆15Updated 5 years ago
- R Interface to the NCBI SRA metadata☆23Updated 6 years ago
- SMBL - SnakeMake Bioinformatics Library. Automatic installation of bioinformatics software in your SnakeMake pipelines.☆23Updated 7 years ago
- BigWig manpulation tools using libBigWig and htslib☆29Updated 7 months ago
- Enriched Domain Detector for ChIP-seq data☆16Updated 2 years ago
- Reproducible reanalysis of a combined ChIP-Seq & RNA-Seq data set☆16Updated 5 years ago
- Simplifies parallel processing of DNA sequencing reads☆9Updated 6 months ago
- A curated list of awesome clonality and tumor heterogeneity resources☆15Updated 5 years ago
- Stupid Simple Structural Variant View☆25Updated 8 years ago
- BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants☆24Updated 9 years ago
- Precursor to SnakeChunks, see https://github.com/SnakeChunks/SnakeChunks. This project has moved and will no longer be edited here.☆11Updated 7 years ago
- Expectation-Maximization algorithm for Allele-Specific Expression☆21Updated last year
- Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities☆25Updated 5 years ago
- A Feature Density Estimator for High-Throughput Sequence Tags☆23Updated 3 years ago
- Modular blocks to build Snakemake workflows for reproducible NGS analyses☆22Updated 5 years ago