Question: local galaxy tophat2 built-in genome
gravatar for biowz
3.4 years ago by
United States
biowz0 wrote:


I am new user to do bioinformatic analysis and know a little about python. Right now, I succeed adding bowtie2- human genome index, and bowtie2 can recognize this built-in genome, however tophat2 can not recognize it.I do not know how to make a path to fix this. Would you like showing me steps in detail? Thank you very much!


tophat software error galaxy • 847 views
ADD COMMENTlink modified 3.4 years ago by Bjoern Gruening5.1k • written 3.4 years ago by biowz0
gravatar for Bjoern Gruening
3.4 years ago by
Bjoern Gruening5.1k
Bjoern Gruening5.1k wrote:


You can install the bowtie2 data manager from the TS: this should update all indexes automatically.



ADD COMMENTlink written 3.4 years ago by Bjoern Gruening5.1k


Thank you very much for your help. I installed data_manager_bowtie2_index_builder before. I used this tool to add bowtie2 human reference index. Bowtie2 software can recognize this index well, however tophat2 can not did this. I also re-install data_manager_bowtie2_index_builder again. It is still no any change. Would you like to help me thinking about it again. Thank you very much in advance!




ADD REPLYlink written 3.4 years ago by biowz0
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