Forum: Bioinformatics
03-22-2017, 04:01 PM
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Replies: 12
Views: 4,382
Thanks for sending us an example bam file,...
Thanks for sending us an example bam file, @GenoMax. We found there were some tags added into the chr field in the bam file, which led to the crash of featureCounts. Below are the first two reads in...
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Forum: Bioinformatics
03-19-2017, 06:00 PM
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Replies: 12
Views: 4,382
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Forum: Bioinformatics
10-31-2016, 02:37 PM
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Replies: 156
Views: 80,476
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Forum: RNA Sequencing
09-11-2016, 05:03 PM
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Replies: 4
Views: 2,632
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Forum: Bioinformatics
09-08-2016, 05:14 PM
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Replies: 8
Views: 2,424
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Forum: Bioinformatics
09-08-2016, 04:06 PM
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Replies: 8
Views: 2,424
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Forum: Bioinformatics
09-08-2016, 03:23 PM
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Replies: 8
Views: 2,424
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Forum: Bioinformatics
08-28-2016, 10:23 PM
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Replies: 24
Views: 10,725
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Forum: RNA Sequencing
08-25-2016, 03:30 PM
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Replies: 6
Views: 2,451
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Forum: RNA Sequencing
08-23-2016, 03:18 PM
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Replies: 6
Views: 2,451
What featureCounts does is it counts the number...
What featureCounts does is it counts the number of reads overlapping with features included in the annotation. Reads that were reported as mapped by aligner but not overlapping any features will not...
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Forum: Bioinformatics
06-08-2016, 04:49 PM
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Replies: 6
Views: 2,739
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Forum: Bioinformatics
06-05-2016, 09:29 PM
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Replies: 156
Views: 80,476
Read 1 was reported only once in your mapping...
Read 1 was reported only once in your mapping result and this read was found to overlap with two genes (ENSNNNG00000079745 and ENSNNNG00000059028) by featureCounts.
Read 2 was reported 5 times in...
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Forum: Bioinformatics
04-13-2016, 03:36 PM
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Replies: 8
Views: 1,765
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Forum: Bioinformatics
03-31-2016, 03:02 PM
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Replies: 7
Views: 2,541
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Forum: Bioinformatics
03-23-2016, 02:49 PM
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Replies: 7
Views: 2,541
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Forum: Bioinformatics
03-22-2016, 05:20 PM
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Replies: 4
Views: 1,747
I noticed that the '—t' option in your command...
I noticed that the '—t' option in your command includes a long dash, which is invalid. Could you replace it with a hyphen and then reran your command? This invalid option might cause problems for...
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Forum: Bioinformatics
03-21-2016, 03:04 PM
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Replies: 4
Views: 1,747
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Forum: Bioinformatics
03-21-2016, 02:58 PM
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Replies: 1
Views: 2,444
The align() function in Bioconductor package...
The align() function in Bioconductor package Rsubread allows you to provide multiple input files for alignment at the same time:
http://bioconductor.org/packages/release/bioc/html/Rsubread.html
...
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Forum: RNA Sequencing
03-09-2016, 01:20 PM
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Replies: 8
Views: 4,685
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Forum: Bioinformatics
03-06-2016, 01:40 PM
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Replies: 2
Views: 2,094
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Forum: Bioinformatics
02-24-2016, 12:52 PM
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Replies: 24
Views: 10,725
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Forum: Epigenetics
01-26-2016, 03:48 PM
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Replies: 3
Views: 2,685
With featureCounts, the default setting is...
With featureCounts, the default setting is unstranded read counting (-s 0).
If you performed unstranded sequencing, the percentage of sense strand reads should be similar to that of antisense...
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Forum: Bioinformatics
01-03-2016, 04:11 PM
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Replies: 24
Views: 10,725
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Forum: Bioinformatics
12-01-2015, 12:41 PM
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Replies: 5
Views: 2,798
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Forum: Bioinformatics
11-29-2015, 07:01 PM
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Replies: 5
Views: 2,798
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