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Updated the README.
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isovic committed Nov 12, 2015
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## GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
**__Current Version: 0.22__**
Release date: 12 November 2015

Updates:
- Many tiny bug fixes, mostly related to anchored alignment. It should be slightly more sensitive now.
- Many tiny bug fixes, mostly related to anchored alignment. It should be slightly more sensitive now.
- Two overlap modes merged from the dev branch: '-w owler' (fast, uses a trimmed GraphMap pipeline, reports output in the MHAP format) and '-w overlapper' (full GraphMap pipeline including alignment, output in SAM format). For usage - check examples at the bottom.

Owler mode (Overlap With Long Erroneous Reads) skips the graph-mapping and alignments steps. The full pipeline consists of:
1. Construct a gapped spaced index of the reads for only one shape (6-mers, "1111110111111").
2. For a read, collect all gapped spaced seed hits.
3. LCSk.
4. Filtering seeds reported by LCSk.
5. Output overlaps in MHAP-like format (instead of Jaccard score, fraction of bases covered by seeds is reported; instead of '# shared min-mers' the number of seeds which survived filtering is reported). Other formats will be supported soon.


### Quick start on Linux x64
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