Mercurial > repos > iuc > hyphy_relax
changeset 18:b8bdfac5a326 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 8f76cb8602f79412152a92b267ee016605ae6b8e"
| author | iuc |
|---|---|
| date | Wed, 23 Dec 2020 20:04:07 +0000 |
| parents | ba548f24669a |
| children | 63f85ef1a3d5 |
| files | hyphy_relax.xml macros.xml |
| diffstat | 2 files changed, 5 insertions(+), 2 deletions(-) [+] |
line wrap: on
line diff
--- a/hyphy_relax.xml Thu Nov 19 22:02:32 2020 +0000 +++ b/hyphy_relax.xml Wed Dec 23 20:04:07 2020 +0000 @@ -9,10 +9,13 @@ <command detect_errors="exit_code"><![CDATA[ ln -s '$input_file' relax_input.fa && ln -s '$input_nhx' relax_input.nhx && + + export OMP_NUM_THREADS="\${GALAXY_SLOTS:-1}" && hyphy relax --alignment ./relax_input.fa --tree ./relax_input.nhx --models '$analysisType' + --code '$gencodeid' #if $treeAnnotations == "2": --test TEST --reference REFERENCE @@ -51,7 +54,7 @@ What question does this method answer? -------------------------------------- -Is there ev- idence the strength of selection has been relaxed (or conversely intensified) on a specified group of lineages (TEST) +Is there evidence the strength of selection has been relaxed (or conversely intensified) on a specified group of lineages (TEST) relative to a set of reference lineages (RELAX)? Importantly, RELAX is not designed to detect diversifying selection specifically. We note that the RELAX framework can perform both this specific hypothesis test as well as fit a suite of descriptive models which address, or example, overall rate differences between test and reference branches or lineage-specific inferences of selection relaxation.
--- a/macros.xml Thu Nov 19 22:02:32 2020 +0000 +++ b/macros.xml Wed Dec 23 20:04:07 2020 +0000 @@ -107,7 +107,7 @@ <yield/> </citations> </xml> - <token name="@VERSION@">2.5.23</token> + <token name="@VERSION@">2.5.24</token> <xml name="requirements"> <requirements> <requirement type="package" version="@VERSION@">hyphy</requirement>