User: vsafavi

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vsafavi0
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Posts by vsafavi

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Answer: A: Jobs remian grey for > 24 h
... Dear Jen, The rerun of data set 161 (the other fasta custom genome after NormalizeFasta) did not work for me - remained grey for TopHat and HISAT2. I am not sure what you mean with reload. Shall I upload the custome genome data again? Many thanks, ...
written 5 months ago by vsafavi0
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Jobs remian grey for > 24 h
... Hi, My TopHat and HISAT2 jobs are remianing grey for more than 24 h. Is this normal or so,ething is going wrong? What can I do to make it work? Thank you, ...
usegalaxy.org upload fasta written 5 months ago by vsafavi0
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Problem with Reference genome from history in Tuxedo
... Hi, 1- I am using Tuxedo for tomato. I run the workflow from the shared data. In the TopHat section in Tuxedo there are the following sections: **Output dataset 'output' from step 1 Use a built in reference genome or own from your history Use a built-in genome Select a reference genome If your ge ...
hisat2 custom-genome tophat2 queue rna-seq written 6 months ago by vsafavi0 • updated 6 months ago by Jennifer Hillman Jackson25k
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Tuxedo_Custome build genome
... I have uploaded tomato genome in GFF3 and FASTA format in galaxy. However, when I run Tuxedo, my genome is not shown in the list of genomes. The GFF3 file is shown in the input dataset. How can I set it as reference genome? Thanks, ...
rna-seq custom datatype genome fasta written 7 months ago by vsafavi0 • updated 7 months ago by Jennifer Hillman Jackson25k
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RNA seq_Galaxy_Tuxedo_reference genome_tomato_does not exist
... Hi, I am trying to analyze my RNA seq data from tomato plants using Tuxedo workflow. However the reference genome is absent in the workflow. How can I proceed? Many thanks in advance, Mary ...
custom genome tomato rna-seq written 7 months ago by vsafavi0 • updated 7 months ago by Jennifer Hillman Jackson25k

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