Published August 22, 2019
| Version 3.2
Software
Open
deeptools/HiCExplorer: Late summer 2019 release
Creators
- 1. @BackofenLab Albert-Ludwigs-University Freiburg im Breisgau
- 2. Boehringer Ingelheim Pharma GmbH & Co. KG
- 3. University of Freiburg
- 4. Hubrecht Institute
- 5. Max Planck Institute of Immunobiology and Epigenetics
- 6. @basf
- 7. OHSU
- 8. Applied Bioinformatics Core | Weill Cornell Medicine
Description
- Adding the new captured Hi-C module. Viewpoint analysis based on a background model, significant interaction detection and differential analysis are provided. Thanks to @rgilsbach and @DonStephano .
- Adding documentation for captured Hi-C module and a tutorial on how to use it.
- Adding a module to be able to detect quite fast the quality of a Hi-C data set: hicQuickQC.
- Adding a tool to merge loops of different resolutions.
- Improving validation of locations: Presorting is no longer necessary; adding feature to add 'chr' prefix to loop or protein chromosome name
- Change loop detection slightly to improve results and fixed bugs:
- preselection p-value was ignored and only p-value was used
- adding additional test to the peak region test to decrease false discoveries
- exchanging pThreshold / ln(distance) to remove too low values by a share of the maximum value of the distance. New parameter 'maximumInteractionPercentageThreshold'
- Removal of the folder 'scripts' and its content. These were outdated scripts and will maybe part of regular Hi-C tools in the future.
Files
deeptools/HiCExplorer-3.2.zip
Files
(229.3 MB)
| Name | Size | Download all |
|---|---|---|
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md5:758f21df41d71fd957486a4e766a5cc9
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229.3 MB | Preview Download |
Additional details
Related works
- Is supplement to
- https://github.com/deeptools/HiCExplorer/tree/3.2 (URL)