Forum: Bioinformatics
02-23-2019, 11:17 AM
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Replies: 23
Views: 28,153
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Forum: Sample Prep / Library Generation
06-21-2018, 06:50 AM
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Replies: 0
Views: 1,017
Problems using the CleanTag Small RNA kit
We're currently trying to sequence a number of samples produced with the CleanTag Small RNA Library Prep Kit (https://www.trilinkbiotech.com/cart/scripts/prodView.asp?idproduct=11644). We're having...
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Forum: Bioinformatics
01-19-2018, 12:53 PM
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Replies: 15
Views: 3,795
The first error is due to a broken pysam...
The first error is due to a broken pysam installation. Just remove pysam and reinstall it. The second error is due to changing the version of numpy installed (you want 1.13.*). As a rule of thumb,...
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Forum: Bioinformatics
01-19-2018, 12:26 PM
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Replies: 15
Views: 3,795
It's rare to see reports of installation errors...
It's rare to see reports of installation errors anymore, especially with conda. If you have installation errors with conda then it's likely that you managed to somehow break your conda installation....
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Forum: Bioinformatics
11-09-2017, 07:37 AM
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Replies: 2
Views: 1,498
Is there a reason you're using mm9 still?
...
Is there a reason you're using mm9 still?
It's fairly unsurprising that old Ensembl releases contain more transcripts than current refseq releases. The former is more comprehensive by design, with...
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Forum: Bioinformatics
10-17-2017, 03:39 PM
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Replies: 1
Views: 1,146
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Forum: Bioinformatics
10-16-2017, 12:29 AM
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Replies: 1
Views: 1,692
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Forum: RNA Sequencing
09-12-2017, 12:10 AM
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Replies: 5
Views: 3,032
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Forum: Bioinformatics
09-11-2017, 01:27 AM
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Replies: 4
Views: 1,185
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Forum: RNA Sequencing
09-11-2017, 01:20 AM
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Replies: 5
Views: 3,032
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Forum: Bioinformatics
08-11-2017, 02:53 AM
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Replies: 1
Views: 1,134
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Forum: Sample Prep / Library Generation
08-09-2017, 02:43 AM
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Replies: 3
Views: 1,350
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Forum: Bioinformatics
08-02-2017, 12:20 AM
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Replies: 2
Views: 1,985
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Forum: Bioinformatics
07-24-2017, 11:45 PM
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Replies: 3
Views: 8,027
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Forum: Bioinformatics
07-02-2017, 11:33 PM
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Replies: 8
Views: 1,655
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Forum: General
06-22-2017, 01:02 AM
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Replies: 1
Views: 1,179
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Forum: Bioinformatics
06-22-2017, 12:56 AM
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Replies: 2
Views: 974
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Forum: Pacific Biosciences
06-02-2017, 12:54 AM
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Replies: 2
Views: 1,834
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Forum: Academic/Non-Profit Jobs
04-27-2017, 12:16 AM
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Replies: 2
Views: 2,200
I went from neuroscience -> bioinformatics, so...
I went from neuroscience -> bioinformatics, so perhaps I can provide some insight.
As a general rule, if you're interested in pursuing a career as an analyst and can get a job with your current...
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Forum: MGISEQ (FKA Complete Genomics)
04-22-2017, 03:05 PM
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Replies: 6
Views: 6,884
I thought BWA (as ends up being the case with a...
I thought BWA (as ends up being the case with a lot of aligners) ends up concatenating the chromosomes together when indexing (with a bunch of N in between). Anyway, BWA at least used to occasionally...
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Forum: Bioinformatics
04-04-2017, 02:34 AM
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Replies: 4
Views: 2,627
My guess (since I haven't a clue about the...
My guess (since I haven't a clue about the background to your experiment) is that you want vpu="Wt" for the mock infected samples. The combination of vpu and virus would then be distinct.
*Edit*:...
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Forum: Bioinformatics
04-04-2017, 01:08 AM
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Replies: 4
Views: 2,627
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Forum: Bioinformatics
04-04-2017, 12:50 AM
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Replies: 4
Views: 2,366
The presumption is that the p-value is from a...
The presumption is that the p-value is from a poisson test, so yes it's between the two samples.
Yes, p<0.05 would normally mean differentially expressed, aside from the fact that the p-values in...
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Forum: Bioinformatics
04-03-2017, 02:10 AM
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Replies: 4
Views: 2,366
If you only sent them single samples from your...
If you only sent them single samples from your groups then the p-values are largely meaningless. There's not a direct correspondence between fold-change and p-value, since lowly expressed genes will...
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Forum: Illumina/Solexa
03-29-2017, 07:15 AM
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Replies: 4
Views: 3,992
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