olgabot / rna-seq-diff-exprn
RNA-Sequencing data differential expression analysis pipeline. Performs: genome coverage (via bedtools and HTSeq), generates Circos code and plots, differential expression (via DESeq and NOISeq), structural variant detection (e.g. fusion genes, via SVDetect) and differential exon usage (via DEXSeq).
☆55Updated 12 years ago
Alternatives and similar repositories for rna-seq-diff-exprn:
Users that are interested in rna-seq-diff-exprn are comparing it to the libraries listed below
- Snakemake based pipeline for RNA-Seq analysis☆31Updated 5 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆40Updated 3 years ago
- Tutorial for AMSI BioInfoSummer 2018☆29Updated 6 years ago
- Run Picard on BAM files and collate 90 metrics into one file.☆39Updated 7 years ago
- A preprocessing pipeline for ChIP-seq, including alignment, quality control, and visualization.☆27Updated 7 years ago
- 2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF☆35Updated 6 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- ATAC-seq Quality Control☆23Updated 2 weeks ago
- Script to automate differential expression analysis using DESeq2, edgeR or limma-voom☆17Updated 6 years ago
- Summer school course materials collection☆25Updated 6 years ago
- R package for bcbio RNA-seq analysis.☆58Updated 4 months ago
- A toolkit for QC and visualization of ATAC-seq results.☆66Updated last week
- Public repository containing research code for the TCGA PanCanAtlas Splicing project☆42Updated 4 years ago
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Updated 7 years ago
- combining p-values using modified stouffer-liptak for spatially correlated results (probes)☆44Updated 2 years ago
- Provides Quality Control of sequencing samples by deducing if there is batch effect and adjusts for it.☆35Updated last year
- A preprocessing and QC pipeline for HiChIP data☆34Updated 2 years ago
- Tutorials covering various topics in genomic data analysis.☆16Updated 6 years ago
- Scripts to import your FeatureCounts output into DEXSeq☆32Updated 6 years ago
- GTEx analysis scripts☆20Updated 7 years ago
- ☆33Updated 6 years ago
- ☆30Updated 6 years ago
- ☆34Updated 8 years ago
- RNA-seq Quantification of Alternative Polyadenylation☆45Updated last year
- tools to find circRNAs in RNA-seq data☆40Updated 7 years ago
- Genomic Association Tester☆30Updated last year
- Detecting intron retention from RNA-Seq experiments☆53Updated 6 months ago
- Bioinformatics analysis scripts, workflows, general code examples☆53Updated 3 years ago
- An R interface to the MEME Suite☆47Updated 3 months ago
- Moderator Templates for https://www.biostars.org/☆11Updated 3 years ago