Skip to content

Update interface documentation #2

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
percolator wants to merge 1 commit into
base: master
Choose a base branch
from
Open

Update interface documentation #2

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 1 addition & 1 deletion _posts/2010-10-27-interface.textile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -77,7 +77,7 @@ h2. percolator
<tr><td><em>[experimental]</em><br/><code>--composition-match</code></td><td>Run an implementation of the Percolator-RESET psmsAndPeptides with target-decoy matching based on composition.</td></tr>
<tr><td><code>-RT</code>, <code>--output-retention-time</code></td><td>Add a retention time column to the output file.</td></tr>
<tr><td><code>--irls-pep</code></td><td>Calculate PEPs using a cubic spline fitted using penalized log-likelihood fitting as described in PMID:18689838. This used to be the default method.</td></tr>
<tr><td><em>[experimental]</em><br/><code>--ip-pep</code></td><td>Use scores instead of rank as independent variable when calculating PEPs.</td></tr>
<tr><td><code>--rank-pep</code></td><td>Use rank instead of score as independent variable when calculating PEPs.</td></tr>
<tr><td><em>[experimental]</em><br/><code>--pava-pep</code></td><td>Calculate PEPs using PAVA isotonic regression.</td></tr>
</tbody>
</table>
Expand Down