# HG changeset patch # User lecorguille # Date 1537775800 14400 # Node ID ae65822c1fb7dc2b3606ffc7ee2a1bc5629b32a0 # Parent cb5f2cc3dedcac29c0fc5f69cc3206b9c75425a3 planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 3c7982d775b6f3b472f6514d791edcb43cd258a1 diff -r cb5f2cc3dedc -r ae65822c1fb7 macros.xml --- a/macros.xml Fri Jul 06 02:51:09 2018 -0400 +++ b/macros.xml Mon Sep 24 03:56:40 2018 -0400 @@ -7,13 +7,14 @@ .. class:: infomark -**Authors** Eric Fontanillas creates the scripts of this pipeline. +**Authors** Eric Fontanillas created the version 1 of this pipeline. Victor Mataigne developped version 2. .. class:: infomark -**Galaxy integration** ABiMS TEAM +**Galaxy integration** Julie Baffard and ABiMS TEAM, Roscoff Marine Station | Contact support.abims@sb-roscoff.fr for any questions or concerns about the Galaxy implementation of this tool. + | Credits : Gildas le Corguillé, Misharl Monsoor --------------------------------------------------- diff -r cb5f2cc3dedc -r ae65822c1fb7 pairwise.xml --- a/pairwise.xml Fri Jul 06 02:51:09 2018 -0400 +++ b/pairwise.xml Mon Sep 24 03:56:40 2018 -0400 @@ -197,9 +197,19 @@ - 'Pairwise' : the general output. It gives the information about what the tool has done for each pairwise. - - 'Pairwise_DNA' : the output which contains nucleic sequences (of the pairwise) that are homologous. The sequences are with nucleotides. It shows for both the query and match : - the name - the sequence in nucleotides + - 'Pairwise_DNA' : the output which contains nucleic sequences (of the pairwise) that are homologous. The sequences are in nucleic format. There are one file per couple of species, and homologous pairs are written by sets of 4 lines : + +Exemple for two homologous pairs for the output file for species X/Y : + +| >Gene_A_species_X_homologous_to_Gene_B_species_Y +| Nucleic_sequence_from_filter_assemblies +| >Gene_B_species_Y_homologous_to_Gene_A_species_X +| Nucleic_sequence_from_filter_assemblies +| >Gene_C_species_X_homologous_to_Gene_D_species_Y +| Nucleic_sequence_from_filter_assemblies +| >Gene_D_species_Y_homologous_to_Gene_C_species_X +| Nucleic_sequence_from_filter_assemblies + -------- @@ -230,6 +240,4 @@ ]]> - -