User: i.jabre26

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i.jabre2610
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6 months, 1 week ago
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8 months, 2 weeks ago
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i********@canterbury.ac.uk

Posts by i.jabre26

<prev • 14 results • page 1 of 2 • next >
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Comment: C: How to plot a profile showing read coverage around the 5 prime splice site?
... Hello, Thanks for your reply and for sharing the codes, that's very clear. I just want to ask how can I get coordinates around 3' splice site instead TSS so what can I use instead of the promoters for the GenomicFeatures. Thanks ...
written 6 months ago by i.jabre2610
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Comment: C: How to plot a profile showing read coverage around the 5 prime splice site?
... Hello, May I please have little bit more details on the tools which can extract the coordinates from gff file and how to align then afterwards ...
written 6 months ago by i.jabre2610
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Associating DNA methylation and nucleosome occupancy with AS events
... I have extracted different splicing events from Arabidopsis RNA-Seq data using SUPPA, generated nucleosome profiles using iNPS, and did methylation calling using BISMARK. I would like to associate DNA methylation and nucleosome occupancy wth AS patterns as shown in the link below. I would highly ap ...
epigenetic alternative splicing written 6 months ago by i.jabre2610 • updated 6 months ago by biostart300
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Comment: C: Extract rows from file two having the 4th column ( which contain /1 /2 signs ) i
... Hello again, I was wondering if for the python code or for the awk code if we can specify the core number., Many thanks :) ...
written 8 months ago by i.jabre2610
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Comment: C: Extract rows from file two having the 4th column ( which contain /1 /2 signs ) i
... The code worked perfectly fine ! thanks ...
written 8 months ago by i.jabre2610
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Comment: C: Extract rows from file two having the 4th column ( which contain /1 /2 signs ) i
... Thank you so much for your reply. No you didn't misunderstand my question at all. This is the desired output. you were very helpful. I guess I'm doing something wrong because I'm getting different result using the awk code Thank you so much ! ...
written 8 months ago by i.jabre2610
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Comment: C: Extract rows from file two having the 4th column ( which contain /1 /2 signs ) i
... Thank you for editing the codes :).. I'm still getting an error tho. Please see below the error I'm getting for the python code Traceback (most recent call last): File "iNPS_tags/Trial.py", line 8, in printList.append(lineList[6]) #Append your tag to printList IndexError: list index out of ...
written 8 months ago by i.jabre2610
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Comment: C: Extract rows from file two having the 4th column ( which contain /1 /2 signs ) i
... I already worked that out :) ...
written 8 months ago by i.jabre2610
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Comment: C: Extract rows from file two having the 4th column ( which contain /1 /2 signs ) i
... Thank you for your codes. I have tried them by both are giving me an error. Did you try them on the test example I posted. Maybe the problem is from my files... ...
written 8 months ago by i.jabre2610
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Extract rows from file two having the 4th column ( which contain /1 /2 signs ) identical to column 7 from file 1 ( which doesn't have /1 /2 signs )
... File1 chr start1 end1 start2 end2 score Tag name 1 1000 2000 3000 4000 0 K00230:40:HNWJLBBXX:4:1101:1002:24155 1 8000 9000 10000 11000 0 K00230:40:HNWJLBBXX:4:1101:1002:35936 File2 chr start1 end1 score Tag name 1 8000 9000 0 K00230:40:HNWJL ...
python written 8 months ago by i.jabre2610 • updated 8 months ago by cpad011211k

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