User: anamabrantesc

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Posts by anamabrantesc

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(Closed) RNA STAR is taking hours to start to run
... I am trying to use RNA STAR but I have been waiting for hours and it is still queued, no sign of a start. Any problem with it? ...
rna-seq written 6 weeks ago by anamabrantesc0
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RNA STAR is taking hours to start to run
... I am trying to use RNA STAR but I have been waiting for hours and it is still queued, no sign of a start. Any problem with it? ...
quota job concurrently queue rna-seq written 6 weeks ago by anamabrantesc0 • updated 6 weeks ago by Jennifer Hillman Jackson25k
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Bam filter does not work the way I expect
... I am having difficulty with NGS: Bam Filter tools. The condition that appear in the resulting JSON filter rules are not the conditions I chose, and the resulting reads are not the ones I want. For instance using { "filters": [ { "mapQuality": ">=15", ...
bam filter rules condition written 6 weeks ago by anamabrantesc0 • updated 6 weeks ago by Jennifer Hillman Jackson25k
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GATK tools and reference genomes
... The GATK tools are present as a beta version, and I tried to use selection or filtration, and there seems to be a problem as the selection of the reference genome is not working. It would normally recognize the reference genome of a VCF file, but it does not recognize or allow you to choose it. Ana ...
gatk written 18 months ago by anamabrantesc0 • updated 18 months ago by Jennifer Hillman Jackson25k
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server datacache.g2.bx.psu.edu unreachable
... I am using the command $ rsync -avzP rsync://datacache.g2.bx.psu.edu/indexes/phiX to learn how to obtain the reference genomes for a local installation of Galaxy. My rsync is enabled, I have checked it. I get rsync: failed to connect to datacache.g2.bx.psu.edu (128.118.250.10): Connection refused ...
local_galaxy written 18 months ago by anamabrantesc0

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