User: Fat.eldefrawy

gravatar for Fat.eldefrawy
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USA
Last seen:
5 months ago
Joined:
6 months, 3 weeks ago
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F************@alexu.edu.eg

Posts by Fat.eldefrawy

<prev • 11 results • page 1 of 2 • next >
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Answer: A: why Tophat very very slow on the galaxy project last 2 days?
... Hello Jen, Thanks for the kind response, I have used galGal4 ( from iGenome) as reference annotation and also used galGal4 as a reference genome but still get the error reference annotation., Does the archiving time version of galGal4 may make mismatch? as galGal4 annotation (iGenom) has 3 archiv ...
written 5 months ago by Fat.eldefrawy10
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why Tophat very very slow on the galaxy project last 2 days?
... Hi everybody, I was using Tophat last week it was a little bit fast, now I'm trying to run a job with the same data set have been used last week, but the job hanged without any progress. this also occurs when running cufflink jobs I rerun the jobs many times, unfortunately, wasn't lucky. any explana ...
mismatch galaxy job queue annotation written 5 months ago by Fat.eldefrawy10
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(Closed) Cuffdiff Errors: "Loading reference annotation" and "Inspecting maps and determining fragment length distributions". whats that mean?
... Hello everybody, I'm very new in RNA seq analysis I have run cuffdiff on 3 condition dataset collections( each collection has 4 replicates) using GALAXY with the cufmerg GTF file, but I got an error, I have repeated the same job many and many times, unfortunately, got the same result. I couldn't un ...
cuffdiff galaxy rna-seq written 5 months ago by Fat.eldefrawy10
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Comment: C: Cuffdiff Errors: "Loading reference annotation" and "Inspecting maps and determi
... Hi Agrant, I have the same problem with cuffdiff (loading reference annotation" and "Inspecting maps and determining fragment length distributions) as you had, my data is 3 conditions each condition 4 replicates and the total size of all of acc hit files around 19 gb, How did you figure out this pr ...
written 5 months ago by Fat.eldefrawy10
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Comment: C: please help its the final step and got Cuffdiff error
... stderr Fatal error: [23:13:23] Loading reference annotation. [23:13:23] Inspecting maps and determining fragment length distributions. [23:35:43] Modeling fragment count overdispersion. [23:38:00] Modeling fragment count overdispersion. [23:40:24] Modeling fragment count overdispersion. Map Propert ...
written 5 months ago by Fat.eldefrawy10
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Comment: C: please help its the final step and got Cuffdiff error
... I have tried to deselect SQLite optional output. but still facing the same problem, I sent a bug report but really I couldn't understand what error information means, I don't have any experience on the command line, please check that Job Execution and Failure Information Command Line cuffdiff --no- ...
written 5 months ago by Fat.eldefrawy10
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Answer: A: please help its the final step and got Cuffdiff error
... stderr Fatal error: [23:13:23] Loading reference annotation. [23:13:23] Inspecting maps and determining fragment length distributions. [23:35:43] Modeling fragment count overdispersion. [23:38:00] Modeling fragment count overdispersion. [23:40:24] Modeling fragment count overdispersion. > Map Pr ...
written 5 months ago by Fat.eldefrawy10
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Answer: A: please help its the final step and got Cuffdiff error
... I have tried to deselect SQLite optional output. but still facing the same problem, I sent a bug report but really I couldn't understand what error information means, I don't have any experience on the command line, please check that Job Execution and Failure Information Command Line cuffdiff --n ...
written 5 months ago by Fat.eldefrawy10
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please help its the final step and got Cuffdiff error
... Hello everyone, I'm very new in RNA seq analysis I have run cuffdiff on 3 condition dataset collections( control and 2 different treatment groups) using GALAXY, then I got an error, I have repeated the same job many times, unfortunately, I got the same result. Fatal error: Exit code 1 () ...
cuffdiff sqlite galaxy issue rna-seq written 5 months ago by Fat.eldefrawy10
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Answer: A: why TopHat doesn't read my compressed dataset collection (Fastqsanger.gz)? -- D
... Thank you, Jennifer. your suggestions helped me more ...
written 6 months ago by Fat.eldefrawy10

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