Hi, this is my first time here and I'm currently in the process of self-learning how to use some sequencing software and ubuntu in general. I've been following the steps of this paper:
I'm working on a server that I currently have no idea what already is installed or not..
I ran this command:
tophat -p 4 -G genes.gtf -o C1_R1_thout genome C1_R1_1.fq C1_R1_2.fq
and this is what showed afterwards:
[2015-03-03 09:44:36] Beginning TopHat run (v2.0.9)
-----------------------------------------------
[2015-03-03 09:44:36] Checking for Bowtie
Bowtie version: 2.1.0.0
[2015-03-03 09:44:36] Checking for Samtools
Samtools version: 0.1.19.0
[2015-03-03 09:44:36] Checking for Bowtie index files (genome)..
Error: Could not find Bowtie 2 index files (genome.*.bt2)
How do I resolve this error?
Thank you.
I'm working on a server that I currently have no idea what already is installed or not..
I ran this command:
tophat -p 4 -G genes.gtf -o C1_R1_thout genome C1_R1_1.fq C1_R1_2.fq
and this is what showed afterwards:
[2015-03-03 09:44:36] Beginning TopHat run (v2.0.9)
-----------------------------------------------
[2015-03-03 09:44:36] Checking for Bowtie
Bowtie version: 2.1.0.0
[2015-03-03 09:44:36] Checking for Samtools
Samtools version: 0.1.19.0
[2015-03-03 09:44:36] Checking for Bowtie index files (genome)..
Error: Could not find Bowtie 2 index files (genome.*.bt2)
How do I resolve this error?
Thank you.
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