User: daisy.ko

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daisy.ko30
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Posts by daisy.ko

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Is is possible to find "SureSelectXT Human Methyl-Seq Capture Library" somewhere?
... I am new will dealing with the SSMethylSeq data and when I want to further analyse a sample, I found that different from other samples which the sequenced fragments were targeted at the bottom strand, that sample have a quite large number of reads from the top strand. Just shown as below: Numbe ...
methyl-seq capture library ssmethylseq coverage written 8 months ago by daisy.ko30 • updated 7 months ago by Biostar ♦♦ 20
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Comment: C: Why would there be a large bias in number in the negative and positive strand af
... Hi Felix, I think that I should post it here ... Thanks for answering. So in that case, I should use the default directional setting with Bismark. But however, I found that even using this setting would get an extreme difference in the read of OB and OT. How can coverage be calculated when we are ...
written 10 months ago by daisy.ko30
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Comment: C: Why would there be a large bias in number in the negative and positive strand af
... Seems that we are having the same problem .... Not sure whether it is because of data quality ... Do you also have a larger number of aligned read in the bottom strand? ...
written 10 months ago by daisy.ko30
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Why would there be a large bias in number in the negative and positive strand after aligning with Bismark?
... I have a paired-end data from "sureselect methyl-seq target enrichment system" which is a kind of Bisulfite sequencing data produced in a similar manner as RRBS as far as I understand. However, after aligning with Bismark with the default Bowtie2, I found that there is a really large bias for the r ...
alignment bismark sequencing written 10 months ago by daisy.ko30 • updated 10 months ago by Felix Krueger40

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