Published May 6, 2019
| Version v1.0
Software
Open
nf-core/hic: Initial release of nf-core/hic
Description
First version of nf-core Hi-C pipeline based on the HiC-Pro pipeline. The current version supports most protocols including Hi-C, in situ Hi-C, DNase Hi-C, Micro-C, capture-C or HiChip data.
NEW FEATURES- Automatic detection and generation of annotation files
- Two-steps alignment of raw sequencing reads
- Reads filtering and detection of valid interaction products
- Generation of raw contact matrices for a set of resolutions
- Normalization of the contact maps using the ICE algorithm
- Generation of cooler file for visualization on higlass
- Quality report based on HiC-Pro MultiQC module
Files
nf-core/hic-v1.0.zip
Files
(129.9 kB)
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Additional details
Related works
- Is supplement to
- https://github.com/nf-core/hic/tree/v1.0 (URL)