UC Santa Cruz Computational Genomics Lab's Toil-based RNA-seq pipeline
☆41Aug 17, 2020Updated 5 years ago
Alternatives and similar repositories for toil-rnaseq
Users that are interested in toil-rnaseq are comparing it to the libraries listed below
Sorting:
- We aim to make it easier for biomedical researchers to access and customize synthetic sequence data for the purpose of sharing and testin…☆11Jul 22, 2019Updated 6 years ago
- Seven Bridges Genomics aligner/caller debugging and analysis tools☆13Nov 20, 2018Updated 7 years ago
- My R scripts, primarily R plotting scripts + some genomics software including 16S rRNA metataxnomics and RNAseq☆12Dec 19, 2022Updated 3 years ago
- Texomer: Integrating Analysis of Cancer Genome and Transcriptome Sequencing Data☆21Aug 19, 2020Updated 5 years ago
- Gene expression viewer template☆11Aug 30, 2017Updated 8 years ago
- ☆11Sep 22, 2025Updated 5 months ago
- A Framework to call Structural Variants from NGS based datasets☆22Jan 22, 2018Updated 8 years ago
- predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data☆27Sep 13, 2023Updated 2 years ago
- Genome free discovery and classification of miRNAs from small RNA-Seq with random forests☆11Jun 12, 2018Updated 7 years ago
- Process Illumina instrument data into SAM/BAM/CRAM files.☆10Jan 5, 2026Updated 2 months ago
- Visualize cancer genomes with FAIR single-cell RNA-seq data☆12Jan 5, 2023Updated 3 years ago
- Data visualization with R☆12Dec 12, 2020Updated 5 years ago
- Bioinformatics Pipeline☆12Oct 7, 2022Updated 3 years ago
- single cell and bulk RNASeq analysis scripts☆14Jan 13, 2022Updated 4 years ago
- ☆81Nov 30, 2018Updated 7 years ago
- a web application to search and navigate the Human Phenotype Ontology (HPO)☆14Feb 27, 2026Updated last week
- R package for DER Finder, a method for differential expression analysis of RNA-seq data☆22Mar 6, 2015Updated 11 years ago
- ENHANCE: Accurate denoising of single-cell RNA-Seq data (Python implementation)☆14Jun 5, 2019Updated 6 years ago
- ☆12Sep 2, 2024Updated last year
- tumor - cancer cell line alignment. Use it on the depmap portal or install it with pip.☆11Dec 5, 2023Updated 2 years ago
- ☆14Jun 3, 2022Updated 3 years ago
- An R package for predicting HR deficiency from mutation contexts☆30Feb 13, 2025Updated last year
- Code to reproduce analyses in Nasser, Bergman, Fulco, Guckelberger, Doughty et al Nature 2021☆16Apr 8, 2021Updated 4 years ago
- Codes for our paper "Single-Cell RNA-Seq Reveals Dynamic Early Embryonic-like Programs during Chemical Reprogramming" published by Cell S…☆11Sep 5, 2020Updated 5 years ago
- LaTeX templates for UCSC thesis and/or advancement (thesis proposal)☆16Dec 5, 2020Updated 5 years ago
- A suite of tools for processing genotype data. Includes calling genotypes from .idat to plink (ped), sample/case-control variant QC steps…☆15Feb 5, 2026Updated last month
- Repository for the Epigenomics Tutorial hold at ISMB 2017 in Prague☆14Aug 19, 2020Updated 5 years ago
- Public data resources and Bioconductor: The goal of this workshop is to introduce Bioconductor packages for finding, accessing, and using…☆15May 12, 2025Updated 9 months ago
- Toil workflows for common genomic pipelines☆33Oct 3, 2019Updated 6 years ago
- parseR: Pipeline for rna-seq analysis in R☆17Jun 23, 2017Updated 8 years ago
- Statistical and computational analysis of the human genome☆15Sep 22, 2021Updated 4 years ago
- Accumulating container resource usage with workflow metadata☆19Mar 17, 2021Updated 4 years ago
- Analysis pipelines for cancer genome sequencing in mice.☆23Jul 29, 2024Updated last year
- SAFE (Single-cell Aggregated clustering From Ensemble): Cluster ensemble for single-cell RNA-seq data☆18Mar 27, 2021Updated 4 years ago
- Accucopy is a computational method that infers Allele-Specific Copy Number alterations from low-coverage low-purity tumor sequencing data…☆17Mar 6, 2024Updated 2 years ago
- ☆22Feb 5, 2025Updated last year
- Automated statistical and functional fine-mapping pipeline with extensive API access to datasets.☆44Jan 20, 2023Updated 3 years ago
- Automate Absolute Copy Number Calling using 'ABSOLUTE' package☆41Nov 28, 2023Updated 2 years ago
- GEO RNA-seq Experiments Processing Pipeline☆22Oct 25, 2019Updated 6 years ago