User: pfaller.christian

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p****************@mayo.edu

Posts by pfaller.christian

<prev • 8 results • page 1 of 1 • next >
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Answer: A: Error with Bowtie2 mapping against rhesus monkey reference genome
... Thank you for your help, Jen! ...
written 9 months ago by pfaller.christian0
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Error with Bowtie2 mapping against rhesus monkey reference genome
... Hello! I am trying to align a fastq file (fastqsanger) with Bowtie2 against the built-in reference genome for Rhesus monkeys (rheMac2, rheMac3). With any of the available reference genomes I receive the following error: Could not locate a Bowtie index corresponding to basename "/galaxy/data/rheMac3 ...
index bowtie2 known-issue rhemac written 9 months ago by pfaller.christian0
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Comment: C: What is the average queue time for Bowtie2?
... Thanks, Jen! I re-started the job and this time it started running after just a few moments. It really must have been the server updates or bad timing (job submission during an update) that held my jobs in queue. ...
written 15 months ago by pfaller.christian0
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Answer: A: What is the average queue time for Bowtie2?
... Thank you so much for your explanation, Jen! Really appreciate it! ...
written 15 months ago by pfaller.christian0
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What is the average queue time for Bowtie2?
... Hi all, I have started a bowtie2 alignment (RNAseq, 100 bp paired end, two 15GB FASTQ files against hg19) yesterday, about 20 hrs ago, and the job is still waiting to start (grey boxes). I am wondering if this is normal, since previously, bowtie2 alignments for me usually started within a few minute ...
bowtie written 15 months ago by pfaller.christian0
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Extract/analyze base quality scores of mutations from BAM alignment
... Hello, I have RNAseq data aligned to my reference genome in BAM format. I would like to correlate base quality scores of mutated nucleotides with the type of transversion/transition (i.g. A->C, A->G, A->T, ..., T->G) in order to show that certain types of mutations are sequencing artifa ...
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Answer: A: Galaxy work space does not clear after deleting files and histories
... Hi Dannon! I got it - excellent! Thanks so much for your help! Christian ...
written 2.7 years ago by pfaller.christian0
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Galaxy work space does not clear after deleting files and histories
... Hello! My 250 GB work space is filling up and I don't know why. I have had an old history from which I have (permanently!) deleted all files and I have deleted the history as well. My current history is at 53.4GB right now, but apparently I am already using 74% of my workspace according to the bar ...
galaxy written 2.7 years ago by pfaller.christian0

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