c-guzman / cipher-workflow-platformLinks
A data processing platform for ChIP-seq, RNA-seq, MNase-seq, DNase-seq, ATAC-seq and GRO-seq datasets. Please ignore information on cipher.readthedocs.io, it is currently out of date. Follow information in README.
☆19Updated 8 years ago
Alternatives and similar repositories for cipher-workflow-platform
Users that are interested in cipher-workflow-platform are comparing it to the libraries listed below
Sorting:
- Adapted from the GATK best practice guide to preprocess whole exome sequencing (WES) data☆11Updated 6 years ago
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Updated 8 years ago
- Opossum is a tool to pre-process RNA-seq reads prior to variant calling.☆28Updated 7 years ago
- Preprocessing tools for unique molecular index (UMI) sequencing reads☆31Updated 2 years ago
- deepStats: a stastitical toolbox for deeptools and genomic signals☆35Updated 4 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 3 years ago
- Rna-seq pipeline, From FASTQ to differential expression analysis...☆20Updated 8 years ago
- JAMM Peak Finder for Sequencing Datasets☆30Updated 5 years ago
- gnomAD browser pre-ASHG 2018☆33Updated 5 years ago
- The Read Origin Protocol (ROP) is a computational protocol that aims to discover the source of all reads, including those originating fro…☆36Updated last year
- ☆35Updated 5 years ago
- Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests☆50Updated last year
- Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…☆42Updated last year
- Tutorials covering various topics in genomic data analysis.☆16Updated 7 years ago
- An automated RNA-seq pipeline using Nextflow☆37Updated last month
- ChIP-seq DC and QC Pipeline☆36Updated 4 years ago
- Pipelines for NGS data preprocessing by the Bock lab and friends☆22Updated 3 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆43Updated 4 years ago
- BigWig manpulation tools using libBigWig and htslib☆30Updated last year
- fast webservices based query tool for large sets of genomic features☆25Updated 8 months ago
- Fast fusion detection using kallisto☆79Updated 7 months ago
- Keep Me Around: Intron Retention Detection☆30Updated 6 years ago
- Subclonal Hierarchy Inference from Somatic Mutations☆21Updated 10 months ago
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆44Updated 3 years ago
- DRAGEN Tumor/Normal workflow post-processing☆25Updated 2 years ago
- Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data☆28Updated 2 years ago
- (DEPRECATED) epic: diffuse domain ChIP-Seq caller based on SICER☆31Updated 7 years ago
- Scripts and software supplement for "Gene-level differential analysis at transcript-level resolution" by Yi, Pimentel, Bray and Pachter☆19Updated 7 years ago
- ☆33Updated 3 years ago
- A small R package to make sequencing read coverage plots in R.☆40Updated 3 weeks ago