User: ritar

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ritar10
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Posts by ritar

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(Closed) How to get only paired end or single end uniquely mapped reads with Bowtie2?
... Hello, I am using bowtie2 on galaxy to map ChIP-seq single end and paired end libraries to a reference genome. I want to be sure I get only uniquely mapped reads (for single end) or uniquely mapped paired of reads (for paired end). I don't want : reads mapping at multiple locations and being random ...
chip-seq bowtie2 mapping uniquely written 6 months ago by ritar10
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Answer: A: fastq groomer dependency problem
... Thank you Jen, I did something else for the time being : installed an older version of fastq groomer. It works perfectly. So I do think that updating my galaxy version will work. Will do that soon. Thanks (and thanks for the heads up on the fastq datatypes. I need to installed the other datatype ...
written 6 months ago by ritar10
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fastq groomer dependency problem
... Hello, We have a local galaxy instance and I just installed fastq groomer but it really doesnt want to work. Error : /home/galaxy/galaxy/database/jobs_directory/005/5145/tool_script.sh: line 9: gx-fastq-groomer: command not found It does says it needs galaxy_sequence_utils 1.1.1 but I can t find i ...
groomer local install dependency admin written 6 months ago by ritar10

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