Mercurial > repos > bgruening > hicexplorer_hiccorrectmatrix
diff hicCorrectMatrix.xml @ 14:1e622e371512 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 5744259254d4254a29cb7a6687fbbfd103301064"
| author | bgruening |
|---|---|
| date | Wed, 05 Feb 2020 19:39:47 -0500 |
| parents | 9949f055db84 |
| children | c543c41377dd |
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--- a/hicCorrectMatrix.xml Mon Dec 16 14:31:21 2019 -0500 +++ b/hicCorrectMatrix.xml Wed Feb 05 19:39:47 2020 -0500 @@ -1,5 +1,5 @@ <tool id="hicexplorer_hiccorrectmatrix" name="@BINARY@" version="@WRAPPER_VERSION@.0"> - <description>run Imakaev's iterative correction over a Hi-C contact matrix.</description> + <description>run a Hi-C matrix correction algorithm</description> <macros> <token name="@BINARY@">hicCorrectMatrix</token> <import>macros.xml</import> @@ -212,7 +212,7 @@ Hi-C contact matrix correction ============================== -**hicCorrectMatrix** runs Imakaev's iterative correction, described in `Imakaev et al. (2012)`_, over a Hi-C matrix. For the matrix correction to be efficient, +**hicCorrectMatrix** runs Imakaev's iterative correction, described in `Imakaev et al. (2012)`_, or Knight-Ruiz correction over a Hi-C matrix. For the matrix correction to be efficient, it is important to remove the unassembled scaffolds (e.g. `NT_`), mitochondrial DNA and Y chromosome and keep only full length chromosomes, as scaffolds create problems with matrix correction. Therefore we use the chromosome names (1-19, X, Y) here.