User: devillartay

gravatar for devillartay
devillartay30
Reputation:
30
Status:
New User
Location:
France
Last seen:
9 months, 2 weeks ago
Joined:
3 years, 2 months ago
Email:
d**********@gmail.com

Posts by devillartay

<prev • 17 results • page 1 of 2 • next >
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Answer: A: No more ftp upload ?
... Sorry my mistake, I was not logged in Thanks jp ...
written 9 months ago by devillartay30
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Answer: A: No more ftp upload ?
... I am using the main galaxy portail (https://usegalaxy.org/). Sorry for not being more specific, it's just that being on main galaxy I did not think it was necessary to mention. ...
written 9 months ago by devillartay30
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Answer: A: No more ftp upload ?
... thanks for your answer. For some odd reason this button is no more present at the bottom of the Upload tool's (only local file and paste/fetch). That's why I was asking the question to start with. best jp ...
written 9 months ago by devillartay30
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No more ftp upload ?
... Hello the ftp option for large file transfer disappeared from Get data/upload file. Does this mean that there is no more the possibility to use ftp transfer? Thanks ...
transfer usegalaxy.org ftp upload account written 9 months ago by devillartay30 • updated 9 months ago by Jennifer Hillman Jackson22k
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Comment: C: Extract fastq sequences from BAM with flag Supplementary alignment
... Thanks for your help. everything worked and I indeed get the fastq files of the filtered "2048" reads in the (UNPAIRED READS) output of SamToFastq. The problem is that it is the sequence of the aligned reads trimmed of the non aligned part (half of the chimeric read) In fact I would like to recover ...
written 12 months ago by devillartay30
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Extract fastq sequences from BAM with flag Supplementary alignment
... Dear all, after running BWA-MEM on a fastq dataset, I identified some "supplementary alignment" reads with Flag 2048 corresponding to chimeric reads. I desperately try to find a way to extract those reads from my dataset into a new fastq file for further analysis. Thanks for your help (I am not an e ...
bam filter flag sam fastq written 12 months ago by devillartay30 • updated 12 months ago by Jennifer Hillman Jackson22k
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Remove PCR duplicates through Unique Molecular Identifiers (UMIs)
... Dear all is there a specific tool in Galaxy to correctly remove PCR duplicates from alignment files when using Unique Molecular Identifiers (UMIs)? Thanks for the help JP ...
galaxy written 15 months ago by devillartay30
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Groomer vs datatype
... Hello all, I've a naive question: fastq file have to be modified to fastqsanger format before running galaxy tools. I see to ways to do it: 1) change manually the datatype -----> it takes no time 2) use fastq grommer -------> it takes ages !!! Beside the fact that groomer has to be used in wor ...
galaxy written 15 months ago by devillartay30 • updated 15 months ago by Jennifer Hillman Jackson22k
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Comment: C: meaning of Job status
... Thanks a lot, si there ils nothing I dix wrong. Just have to be patient, which is fine. Le 29 avr. 2016 20:42, "Jennifer Hillman Jackson on Galaxy Biostar" < notifications@biostars.org> a écrit : ...
written 16 months ago by devillartay30
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meaning of Job status
... Hello, I launched a bowtie2 job on fastq files. The system told me that they were in queue but their status is not "waiting to run" but "!" which means "This is a new dataset and not all of its data are available yet". I have no idea of which data it's waiting for. Here is what I did: 1) upload seve ...
rna-seq written 16 months ago by devillartay30 • updated 16 months ago by Jennifer Hillman Jackson22k

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