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I have had a look around the Preseq website as I am interested in implementing it as part of our ChIP-Seq workflow, and also to stimulate some discussions with lab members regarding the re-sequencing …
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**Examiner _#_1**
- [x] Section 2.2.2: The M-bias is well explained, and a strategy to avoid this problem is presented. However, it would be useful to examine the effect of filtering by quality or nei…
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most of the bisulfite sequencing mapper support SAM output format. In order to support downstream analysis, bsmapper will be support SAM format, too.
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Lets go ahead and purchase kits to make libraries using Illumina protocols.
sr320 updated
9 years ago
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Section 2.4 of the MethPipe manual states that "[s]ince symmetric methylation is the common case for CpG methylation, we have _designed all of our analysis tools based on symmetric CpG sites_, which m…
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What do people think about a name for this mapper? The defining features are that it makes use of a two-letter alphabet and is therefore optimized for bisulfite treated reads, and makes use of a hash…
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sr320 updated
9 years ago
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sr320 updated
9 years ago
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I am running `merge-methcounts` to merge the output from `methcounts` (which was run for all genomic contexts, i.e. without `-n`). However, I receive the fatal error: "inconsistent context" for all of…
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seeing these in the logs
example query, {u'doi': [u'10.12688/f1000research.2-217.v1']}
Due to a debug log line where I'm logging the result coming back from crossref. Not a good idea to have things …