User: dec986
dec986 • 200
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Posts by dec986
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... I finally got it all to work, there were numerous small issues tangently related to what you wrote here bernatgel, thank you very much! ...
written 7 months ago by
dec986 • 200
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... thanks, I'm reading it through (this is taking a while to get all of the R libraries sorted out) ...
written 7 months ago by
dec986 • 200
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... Hello, I'm trying to identify the image used to make this image, I cannot find out, and the author of the paper Figure 2A in DOI:10.1371/journal.pone.0120388 isn't answering his email, does anyone recognize what software was used to make this image?
an edit to BioStars: none of these free image hos ...
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Comment:
C: Diploid calls on chrY?
... These are the reference and alternate allele frequencies (count, and then GT within VCF):
2511 0/1
280 1/1
5 1/2
I don't know what to think anymore ...
written 7 months ago by
dec986 • 200
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Comment:
C: Diploid calls on chrY?
... thank you! that is very useful. All 2,796 of my sites are diploid, from 2,649,476 to 59,032,665 Is there a possibility of some sort of technical error, or is this genuine XYY? ...
written 7 months ago by
dec986 • 200
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... Hello,
I recently got my genome sequenced.
chrY 59030922 . A G 1244.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-6.580e-01;ClippingRankSum=0.00;DP=41;ExcessHet=3.0103;FS=9.230;MLEAC=1;MLEAF=0.500;MQ=37.33;MQRankSum=-4.563e+00;QD=30.36;ReadPosRankSum=-7.570e-01;SOR=0.076;VQSLOD=0.452;culprit=FS GT: ...
written 7 months ago by
dec986 • 200
• updated
7 months ago by
finswimmer ♦ 12k
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407
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... indeed, the issue was disk space, silly me. It would have been nice had samtools provided an error, however, the temp files used more space than I anticipated. ...
written 10 months ago by
dec986 • 200
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407
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6 follow
1
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... I am trying to sort a bam file, which is 4.1 GB in size using simply `samtools sort -o sorted.bam start.bam`, but the file hangs after about 6.5 hours when the sorted file is 3.1 GB, no warning messages or anything. None of the temp files have been deleted either. I don't think the computer ran ou ...
written 10 months ago by
dec986 • 200
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1.2k
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... I've edited the original question to show how I'm running ballgown ...
written 13 months ago by
dec986 • 200
0
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1
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1.2k
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... thanks, I've edited the original post ...
written 13 months ago by
dec986 • 200
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For Installation of Bcl2Fastq Fails
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For Alignment with STAR produces unique bam files, but identical output from bedtools multicov
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