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The latest version of meme tool supports RNA alphabet. The parser for meme in Bio.motif is outdated and only accommodates protein and DNA alphabet.
Adding a single 'elif' statement to Bio/motifs/mem…
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**List of how to refer to specific data set types**
Human readable | file names |
------------ | ------------- |
Variation | Variation
Poly(A) sites | PolyA
Replication profiling | Replica…
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CDS_coordinates, by chromosome - ftp://ftp.ebi.ac.uk/pub/databases/pombase/pombe/CDS_Coordinates/
exon coordinates - ftp://ftp.pombase.org/pombe/Exon_Coordinates/
see https://github.com/pombase/…
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SuRE-seq, the previous dataset I was working with, is fundamentally a promoter assay, and therefore it was hard to find many biologically relevant features other than GC content (which affects nucleos…
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Hello Xiangchun:
could you able to share the R function "prepareInputsForDecipherMutationalSignatures" to preparing our data for mutation signature? Thanks.
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Some of my STAR jobs fail with a std::bad_alloc. Has anyone experienced this before? How did they solve it? Here is the error message I get:
```
terminate called after throwing an instance of 'std…
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**26 June 2017**
My first deep learning models finished training today! For the first pass, I trained a regression model using the 2.2M fragments that were positive across both of the SuRE replicat…
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GO:0004810 tRNA adenylyltransferase activity
and possibly other siblings
should be housed under the new term:
id: GO:1990817
name: RNA adenylyltransferase activity
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Hi,
As mentioned in my comment in issue #820 , I'm not able to run `Tests/test_KDTree.py` or the related class in the `Bio` folder.
Following @peterjc suggestion, I've run the `python setup.py i…
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--Hi,
is it possible to use bam output from tophat or other aligner than STAR?
thank you --