Question: Hisat2 Index with splice sites and exons
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gravatar for biogrin
4 months ago by
biogrin0
biogrin0 wrote:

I'm trying to generate a index for HISAT2 but am facing trouble extracting exons and splice sites.

When I try to do so, these are the errors I get:

/usr/bin/shifter: hisat2_extract_splice_sites.py: No such file or directory

/usr/bin/shifter: hisat2_extract_exons.py: No such file or directory

I'm using HISAT2 from a docker image so I thought maybe it is not finding the path to the tool? Although the command hisat2-build runs fine, and I am able to generate the index without these options with no problem.

I'm new to bioinformatics so I'm sorry if my question is too basic. Thanks a lot

index rna-seq hisat2 • 132 views
ADD COMMENTlink written 4 months ago by biogrin0
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