Question: Integrating Pre-built Bowtie2 Indexes
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gravatar for onspotproductions
2.1 years ago by
United States
onspotproductions40 wrote:

I have obtained the pre-built bowtie2 indexes from Ensemble and would like to integrate them into our galaxy install to be used with tophat2. What is the best method to add these builds and have them correctly identified by the tools.

rna-seq bowtie galaxy bowtie2 • 877 views
ADD COMMENTlink modified 2.1 years ago by Devon Ryan1.9k • written 2.1 years ago by onspotproductions40
0
gravatar for Devon Ryan
2.1 years ago by
Devon Ryan1.9k
Germany
Devon Ryan1.9k wrote:

tophat2 gets its list from the tophat2_indexes table, which is stored in tool-data/bowtie2_indices.loc. At least that's the case on my instance. You can edit that file and then reload it under "Admin"->"Local data".

ADD COMMENTlink written 2.1 years ago by Devon Ryan1.9k

Thank you, that is exactly the information I needed.

ADD REPLYlink written 2.1 years ago by onspotproductions40
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