Mercurial > repos > dereeper > pangenome_explorer

diff config.yaml @ 16:1e0698511c9f draft

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Uploaded
author dereeper
date Sun, 15 Dec 2024 21:30:16 +0000
parents e42d30da7a74
children
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--- a/config.yaml	Wed Dec 11 08:25:06 2024 +0000
+++ b/config.yaml	Sun Dec 15 21:30:16 2024 +0000
@@ -9,25 +9,3 @@
   - GCA_001021915.1
   - GCA_022406815.1
 
-# Path of genbank files
-input_genbanks:
-  - data/GCA_001518895.1.gb
-  - data/GCA_001746615.1.gb
-  - data/GCA_003382895.1.gb
-
-# Input genomes as fasta and annotation files in GFF format
-# Only applied when using Orthofinder or PGGB workflows, starting from fasta and GFF
-# To be used preferentially for eukaryotes
-input_genomes:
-  "MSU7":
-    "fasta": "/share/banks/Oryza/sativa/japonica/MSU7/all.con"
-    "gff3": "/share/banks/Oryza/sativa/japonica/MSU7/all.gff3"
-    "name": "MSU7"
-  "kitaake":
-    "fasta": "/share/banks/Oryza/sativa/japonica/kitaake/Oryza_sativa_japonica_Kitaake.assembly.fna"
-    "gff3": "/share/banks/Oryza/sativa/japonica/kitaake/Oryza_sativa_japonica_Kitaake.gff3"
-    "name": "kitaake"
-  "nivara":
-    "fasta": "/share/banks/Oryza/nivara/Oryza_nivara.assembly.fna"
-    "gff3": "/share/banks/Oryza/nivara/Oryza_nivara.gff3"
-    "name": "nivara"