Skip to content

Commit

Permalink
docs: -c reference
Browse files Browse the repository at this point in the history
  • Loading branch information
ondovb committed Apr 13, 2016
1 parent f22f1f2 commit cd664f6
Showing 1 changed file with 5 additions and 1 deletion.
6 changes: 5 additions & 1 deletion doc/sphinx/sketches.rst
Original file line number Diff line number Diff line change
Expand Up @@ -91,7 +91,11 @@ sequencing error. The minimum copies of each k-mer required can be specified
with :code:`-m` (e.g. :code:`-m 2` to filter unique). However, this could
lead to high memory usage if genome size is high and coverage is low, such as
in metagenomic read sets. In these cases a Bloom filter can be used (:code:`-b`)
to filter out most unique k-mers with constant memory.
to filter out most unique k-mers with constant memory. If coverage is high (e.g.
>100x), it can be helpful to limit it to save time and to avoid repeat errors
appearing as legitimate k-mers. This can be done with :code:`-c`, which stops
sketching reads once the estimated average coverage (based on k-mer
multiplicity) reaches the target.

Working with sketch files
-------------------------
Expand Down

0 comments on commit cd664f6

Please sign in to comment.