Admin: Jennifer Hillman Jackson

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Jennifer Hillman-Jackson

Galaxy Application Support
http://usegalaxy.org
http://galaxyproject.org
http://biostar.usegalaxy.org

Posts by Jennifer Hillman Jackson

<prev • 5,954 results • page 2 of 596 • next >
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Answer: A: FASTQC for RNAseq
... Hello, Please see this Galaxy tutorial for how to perform QA/QC: https://galaxyproject.org/tutorials/ngs/ A failed GC content result from FastQC does not necessarily mean that the data is unusable. Details: https://www.bioinformatics.babraham.ac.uk/projects/fastqc/Help/3%20Analysis%20Modules/5%20P ...
written 1 day ago by Jennifer Hillman Jackson24k
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Comment: C: Jobs remian grey for > 24 h
... Hello, The queued jobs are using an input custom genome dataset that is still running through NormalizeFasta. In fact, both of the NormalizeFasta jobs in this history have been queued for over 24 hrs. This is a problem. More feedback soon and thanks for reporting the issue. Jen, Galaxy team ...
written 1 day ago by Jennifer Hillman Jackson24k
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Answer: A: Scipy error - no Fortran compiler found
... Hello, The package probably assumes that you already have installed the Fortran compiler appropriate for your OS. Start here: http://fortranwiki.org/fortran/show/Compilers Thanks! Jen, Galaxy team ...
written 1 day ago by Jennifer Hillman Jackson24k
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Answer: A: RNA Seq workflow with dataset collections
... Hello, Please see this tutorial for an example RNA-seq workflow that uses collections. Htseq_count can be used instead of FeatureCounts. https://galaxyproject.org/tutorials/nt_rnaseq/ After going through the tutorial, extract the workflow from the history to better understand how the datasets conn ...
written 1 day ago by Jennifer Hillman Jackson24k
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Comment: C: Getting FTP uploaded files into the history of a local Galaxy
... https://galaxyproject.org/admin/config/#ftp ...
written 1 day ago by Jennifer Hillman Jackson24k
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Comment: C: trinity assembly failed
... Hello - Yes, this has been reported a few times in the last few hours when using the tool at Galaxy Main https://usegalaxy.org. Our administrator has been notified. More feedback in the morning. Thanks for reporting the issue! Jen, Galaxy team ...
written 1 day ago by Jennifer Hillman Jackson24k
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Comment: C: Help with GATK protocol
... Hello eennadi! Questions similar to yours can already be found at: Unified Genotyper ERROR (Deprecated tool at Galaxy Main http://usegalaxy.org) We have closed your question to allow us to keep similar content in the same thread. If you disagree with this please tell us why in ...
written 2 days ago by Jennifer Hillman Jackson24k
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Answer: C: Tophat Error for SRA accessions
... Hello, What is the error? To locate this, click on the green bug icon for one of the red error results from Tophat. Does it match up with any of the error troubleshooting help here? https://galaxyproject.org/support/#unexpected-results Thanks! Jen, Galaxy team ...
written 2 days ago by Jennifer Hillman Jackson24k
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Answer: A: Conversion GFF to BED
... Hello, The input dataset is not in GFF format and it is not assigned that datatype. Both are required for this conversion tool. The data appear to be in GFF3 format with a problem in the header and comment lines (those starting with ##). There are tabs included in these lines, instead of the spac ...
written 2 days ago by Jennifer Hillman Jackson24k
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Comment: C: Cuffdiff error while running RNA seq
... Hello, Some of the HISAT2 runs did not include the Cufflinks alignment reporting. Example: data collection 129. Please review all HISAT2 inputs and rerun any jobs that did not have this parameter set, then rerun the downstream tools that use the output. If you get this error again, the same problem ...
written 2 days ago by Jennifer Hillman Jackson24k

Latest awards to Jennifer Hillman Jackson

Scholar 8 days ago, created an answer that has been accepted. For A: Multiple input for samtools mpileup (-b option) for GBS pipeline
Scholar 14 days ago, created an answer that has been accepted. For A: TopHat error (An error occurred setting the metadata for this dataset Set it man
Scholar 14 days ago, created an answer that has been accepted. For C: Error using DataManager to fetch a reference genome
Scholar 15 days ago, created an answer that has been accepted. For A: How to know if mapping to reference genome was succesful?
Teacher 19 days ago, created an answer with at least 3 up-votes. For A: bowtie2 out of memory
Scholar 19 days ago, created an answer that has been accepted. For A: SAM-to-BAM 'Failed runtime validation of Using reference genome' Error - Local G
Scholar 29 days ago, created an answer that has been accepted. For A: bowtie2 out of memory
Scholar 4 weeks ago, created an answer that has been accepted. For A: how to Installing Tools into Galaxy from Tool Shed
Popular Question 4 weeks ago, created a question with more than 1,000 views. For Getting Started with Galaxy Biostar
Scholar 5 weeks ago, created an answer that has been accepted. For C: AddOrReplaceReadGroups Fatal error
Scholar 5 weeks ago, created an answer that has been accepted. For A: Fasta Files from FTP sites
Scholar 5 weeks ago, created an answer that has been accepted. For A: Statistics - Count Tool
Scholar 5 weeks ago, created an answer that has been accepted. For A: Error and job completion notification via email
Appreciated 7 weeks ago, created a post with more than 5 votes. For Welcome to Galaxy Biostar
Scholar 9 weeks ago, created an answer that has been accepted. For A: location of tool after installed from toolshed
Scholar 9 weeks ago, created an answer that has been accepted. For A: Reference genome download - a step-by-step please?
Scholar 10 weeks ago, created an answer that has been accepted. For A: Reference genome download - a step-by-step please?
Scholar 12 weeks ago, created an answer that has been accepted. For A: CummerRbund sqlite input file doesnt correspond to Cuffdiff output
Scholar 12 weeks ago, created an answer that has been accepted. For A: FASTA QC ON GROOMER DATA :
Teacher 12 weeks ago, created an answer with at least 3 up-votes. For A: bowtie2 out of memory
Scholar 12 weeks ago, created an answer that has been accepted. For A: Trinity- error setting metadata
Popular Question 3 months ago, created a question with more than 1,000 views. For Getting Started with Galaxy Biostar
Popular Question 3 months ago, created a question with more than 1,000 views. For February 18, 2011 Galaxy Development News Brief
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: bowtie2 out of memory

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