Forum: Bioinformatics
09-15-2017, 08:39 AM
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Replies: 0
Views: 1,269
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Forum: Bioinformatics
07-13-2017, 11:59 AM
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Replies: 16
Views: 2,782
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Forum: Bioinformatics
07-13-2017, 11:49 AM
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Replies: 16
Views: 2,782
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Forum: Bioinformatics
07-13-2017, 11:40 AM
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Replies: 16
Views: 2,782
aha! ok thanks for the clarification!
an...
aha! ok thanks for the clarification!
an example of original fastq file names:
INPUT_1_130506_BH0HVBADXX_P382_108_index8_1.fastq
INPUT_2_130506_BH0HVBADXX_P382_108_index8_1.fastq
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Forum: Bioinformatics
07-13-2017, 11:21 AM
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Replies: 16
Views: 2,782
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Forum: Bioinformatics
07-13-2017, 11:01 AM
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Replies: 16
Views: 2,782
This is an example of the first reads from...
This is an example of the first reads from TrimGalore output files 1 and 2 (as shown in Galaxy with the "eye" button):
File1:
@HWI-ST1018:141:H0HVBADXX:1:1101:1235:1969 1:N:0:CAGATC...
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Forum: Bioinformatics
07-13-2017, 10:21 AM
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Replies: 16
Views: 2,782
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Forum: Bioinformatics
07-13-2017, 09:24 AM
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Replies: 16
Views: 2,782
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Forum: Bioinformatics
07-13-2017, 08:55 AM
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Replies: 16
Views: 2,782
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Forum: Bioinformatics
07-13-2017, 08:47 AM
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Replies: 16
Views: 2,782
Hi GenoMax, thanks for your reply.
Both...
Hi GenoMax, thanks for your reply.
Both files were trimmed together with the option paired-end library... that's why I don't know the reason of disconcordant reads....
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Forum: Bioinformatics
07-13-2017, 06:35 AM
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Replies: 16
Views: 2,782
>90% aligned concordantly 0 times ChIP-seq Bowtie2
Hi,
I know this question have raised many times here and in other forums but I've tried everything other people suggested in previous posts and still can't figure it out where is the problem.........
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Forum: Illumina/Solexa
07-13-2017, 05:04 AM
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Replies: 0
Views: 1,209
>90% aligned concordantly 0 times ChIP-seq Bowtie2
Hi,
I know this question have raised many times here and in other forums but I've tried everything other people suggested in previous posts and still can't figure it out where is the problem.........
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Forum: Epigenetics
10-07-2016, 02:44 AM
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Replies: 0
Views: 1,731
Correlation of mRNA-methylation pairs
Hi,
I have data from 450K Illumina methylation arrays (average beta values) and microarray (log2FC). I need to compute the correlation and p-value of each CpG-gene pair but I'm not sure how to do...
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Forum: Epigenetics
10-23-2014, 04:59 AM
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Replies: 53
Views: 8,464
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Forum: Epigenetics
10-23-2014, 04:50 AM
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Replies: 53
Views: 8,464
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Forum: Epigenetics
10-23-2014, 04:49 AM
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Replies: 53
Views: 8,464
> head(M)
[[1]]
[1] . . . . . . . . . . ....
> head(M)
[[1]]
[1] . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
[58] . . . . . . . . . . . . . . . . . . . . . . . . ....
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Forum: Epigenetics
10-23-2014, 04:44 AM
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Replies: 53
Views: 8,464
> BS <- BSseq(M=M, Cov=Cov, gr=gr, pData=groups,...
> BS <- BSseq(M=M, Cov=Cov, gr=gr, pData=groups, samplesNames=samples)
Error in BSseq(M = M, Cov = Cov, gr = gr, pData = groups, samplesNames = samples) :
unused argument (samplesNames =...
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Forum: Epigenetics
10-23-2014, 04:22 AM
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Replies: 53
Views: 8,464
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Forum: Epigenetics
10-23-2014, 04:11 AM
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Replies: 53
Views: 8,464
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Forum: Epigenetics
10-23-2014, 04:09 AM
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Replies: 53
Views: 8,464
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Forum: Epigenetics
10-23-2014, 03:44 AM
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Replies: 53
Views: 8,464
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Forum: Epigenetics
10-23-2014, 03:17 AM
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Replies: 53
Views: 8,464
thank you very much for your help, I´m just...
thank you very much for your help, I´m just starting with R but right now I´m not able to take any course, I will do it during Christmas vacation when I have more time... but I´m pushed to finish...
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Forum: Epigenetics
10-23-2014, 02:58 AM
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Replies: 53
Views: 8,464
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Forum: Epigenetics
10-23-2014, 02:43 AM
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Replies: 53
Views: 8,464
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Forum: Epigenetics
10-23-2014, 02:19 AM
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Replies: 53
Views: 8,464
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