Moderator: swbarnes2
swbarnes2 ♦ 6.0k
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Posts by swbarnes2
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... You could split on the CB tag, but coverage in single cell datasets is so poor, you aren't going to find high quality variants. ...
written 2 days ago by
swbarnes2 ♦ 6.0k
2
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2
answers
58
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... Why can't you just take the first 4000 lines of your fastq? ...
written 2 days ago by
swbarnes2 ♦ 6.0k
1
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2
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131
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... FWIW, my IT guy couldn't install bcl2fastq like this either. He used the rpm. ...
written 4 days ago by
swbarnes2 ♦ 6.0k
1
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1
answer
59
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Answer:
A: BWA index getting killed
... Why are you trying to index a fastq file?
You are supposed to index your reference file, not your read file. Your reference file should be fasta format. ...
written 4 days ago by
swbarnes2 ♦ 6.0k
0
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1
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151
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Comment:
C: Setting Up Model in DeSeq2
... Does group associate with PC3 or PC4? Because group looks like it's not affecting expression much, if at all, so comparing between groups will show you little or nothing. Does PC1 correlate with batch? ...
written 7 days ago by
swbarnes2 ♦ 6.0k
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1
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100
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1
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... qiime2 is clearly looking for reads file that end in .gz. So why don't you zip yours (how did they get unzipped in the first place?) and try again? ...
written 8 days ago by
swbarnes2 ♦ 6.0k
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2
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523
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... In a library prep that is biased towards one end of the transcript, transcript length won't affect the number of read counts you get, so correcting for it would be wrong. ...
written 8 days ago by
swbarnes2 ♦ 6.0k
1
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1
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100
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1
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... Okay, so it looks like your fastq names don't match the regex that the import function expects. but if you choose not to tell us what your file names are, we can't possibly help you there. ...
written 8 days ago by
swbarnes2 ♦ 6.0k
0
votes
1
answer
151
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1
answers
Comment:
C: Setting Up Model in DeSeq2
... Sure, large amounts of noise will make it hard for the software to conclude that the difference in means between groups is significant. Your images do not work for me. ...
written 8 days ago by
swbarnes2 ♦ 6.0k
0
votes
1
answer
151
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1
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Comment:
C: Setting Up Model in DeSeq2
... If that's what your data is, that's what your data is. ...
written 8 days ago by
swbarnes2 ♦ 6.0k
Latest awards to swbarnes2
Teacher
5 weeks ago,
created an answer with at least 3 up-votes.
For A: Calculating Rpkm For Rna-Seq Data Including Several Samples Each Condition
Teacher
8 weeks ago,
created an answer with at least 3 up-votes.
For A: Calculating Rpkm For Rna-Seq Data Including Several Samples Each Condition
Teacher
9 weeks ago,
created an answer with at least 3 up-votes.
For A: Calculating Rpkm For Rna-Seq Data Including Several Samples Each Condition
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11 weeks ago,
created a question with more than 1,000 views.
For DESeq2 multi-factor design
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3 months ago,
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For A: Calculating Rpkm For Rna-Seq Data Including Several Samples Each Condition
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For C: how to identify a sequencing sample's gender
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3 months ago,
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For C: how to identify a sequencing sample's gender
Teacher
3 months ago,
created an answer with at least 3 up-votes.
For A: Calculating Rpkm For Rna-Seq Data Including Several Samples Each Condition
Teacher
3 months ago,
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For A: Calculating Rpkm For Rna-Seq Data Including Several Samples Each Condition
Teacher
4 months ago,
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For A: Calculating Rpkm For Rna-Seq Data Including Several Samples Each Condition
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4 months ago,
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For C: how to identify a sequencing sample's gender
Teacher
7 months ago,
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For A: Calculating Rpkm For Rna-Seq Data Including Several Samples Each Condition
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