Difference between revisions of "Migrating from GBrowse to JBrowse"
From GMOD
(Created page with " == Things to consider == *New or Existing Server *disk space requirements *computing requirements *do you have the original GFF? *dealing with multiple species/data sources...") |
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== Things to consider == | == Things to consider == | ||
| − | + | ===New or Existing Server=== | |
| − | + | ===disk space requirements=== | |
| − | + | ===computing requirements=== | |
| − | + | ===do you have the original GFF?=== | |
| − | + | ||
| + | Generally, it Is easier to create a JBrowse instance from the original GFF that from a GBrowse database like Bio::DB::GFF or Bio::DB::SeqFeature::Store. | ||
| + | |||
| + | ===dealing with multiple species/data sources=== | ||
| + | |||
| + | JBrowse can easily support having multiple species or data sources, like you would see in a drop down menu in GBrowse. See [[JBrowse_FAQ#How_do_I_set_up_multiple_genomes_in_a_single_jbrowse_instance.3F|this FAQ]] and the one below it, and the section in the [[JBrowse Configuration Guide]] that they point to. | ||
==prepare-refseqs.pl== | ==prepare-refseqs.pl== | ||
Revision as of 18:19, 9 July 2018
Contents
Things to consider
New or Existing Server
disk space requirements
computing requirements
do you have the original GFF?
Generally, it Is easier to create a JBrowse instance from the original GFF that from a GBrowse database like Bio::DB::GFF or Bio::DB::SeqFeature::Store.
dealing with multiple species/data sources
JBrowse can easily support having multiple species or data sources, like you would see in a drop down menu in GBrowse. See this FAQ and the one below it, and the section in the JBrowse Configuration Guide that they point to.
prepare-refseqs.pl
Example command lines for GFF, FASTA and BioDB
*-to-json.pl
Mapping out GBrowse to JBrowse configuration
A table would be good
