RepLoc Sequence repetitiveness quantification and de novo repeat detection
We developed a software named Repeat Locator (RepLoc), which quantifies the sequence repetitiveness based on weighted k-mer coverage. The repetitiveness map (Rmap) generated by RepLoc can be used to determine all repetitive sequences in the genome. The potential applications of this method include: de novo repeat detection (both common repeats and segmental duplications), genome structure and genome mappability analysis, etc.
The workflow of RepLoc:
Updates:
- 2021-03-12: Cross-species Rmap comparison.
- 2020-05-12: 6 marine microorganisms added.
- 2020-03-10: Major updates.
- 2019-05-25: The Rmap visualization modified.
- 2019-01-19: Bigwig tracks added in JBrowse.
- 2018-12-27: The website launched.
- 2018-05-06: JBrowse pages constructed.
- 2018-02-25: The analysis workflow built.
- 2017-12-06: Main programs developed.
- 2017-05-10: The project launched.