Skip to content

Commit

Permalink
chore: update genomescope info
Browse files Browse the repository at this point in the history
  • Loading branch information
mbhall88 committed Nov 29, 2024
1 parent cc5b6bb commit b0cba22
Showing 1 changed file with 2 additions and 2 deletions.
4 changes: 2 additions & 2 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -420,8 +420,8 @@ metric.
The methods we compare against are:

[GenomeScope2](https://github.com/tbenavi1/genomescope2.0): to get estimates from GenomeScope2, you need to first generate
a k-mer spectrum. We used [KMC](https://github.com/refresh-bio/KMC) for this. You can find a Python script that takes reads
and generates a k-mer spectrum in [`genomescope.py`](./paper/workflow/scripts/genomescope.py). The list of parameters used
a k-mer spectrum. We used [KMC](https://github.com/refresh-bio/KMC) for this. You can find a Python script that takes
reads, generates a k-mer spectrum, and estimates genome size in [`genomescope.py`](./paper/workflow/scripts/genomescope.py). The list of parameters used
can also be found in the [workflow config](./paper/config/config.yaml).

[Mash](https://github.com/marbl/Mash): we used `mash sketch` on the reads, which prints out the estimated genome size in
Expand Down

0 comments on commit b0cba22

Please sign in to comment.