User: Cacau

gravatar for Cacau
Cacau390
Reputation:
390
Status:
Trusted
Location:
Canada
Last seen:
3 months, 1 week ago
Joined:
4 years, 8 months ago
Email:
c**************@gmail.com

about me

Posts by Cacau

<prev • 110 results • page 1 of 11 • next >
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Comment: C: Why do ribo-seq sequencing data have only a small proportion of uniquely mapped
... That's very helpful! Thank you. ...
written 3 months ago by Cacau390
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Why do ribo-seq sequencing data have only a small proportion of uniquely mapped reads?
... I downloaded several published ribo-seq data and mapped them with STAR. However, only 15% ~ 50% of them are uniquely mapped reads. The reads are short, the length being about 35bp long after trimming. Is this the reason? Or might be because many rRNA reads are included? ...
ribo-seq rna-seq written 3 months ago by Cacau390 • updated 3 months ago by mark.ziemann1.0k
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Comment: C: Computing 1Gc 2GC 3GC on any CDS
... R may be a little bit slow for large-scale analysis. So I suggest not using it in case you have much data to analyze. ...
written 6 months ago by Cacau390
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Automatic functional annotation of protein sequences
... Is there any tool to automatically annotate eukaryotic genomes? I have protein sequences available already. ...
genome gene protein blast annotation written 6 months ago by Cacau390 • updated 6 months ago by Vijay Lakhujani1.7k
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Comment: C: Using FastTree to Constrian by Taxonomy
... You can write to the author of fasttree who usually replies very fast. ...
written 7 months ago by Cacau390
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Answer: A: Computing 1Gc 2GC 3GC on any CDS
... [condonW][1] should be able to help you. [1]: http://codonw.sourceforge.net/ ...
written 7 months ago by Cacau390
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Comment: C: Zero length branches on a phylogram
... You can add more taxa/sequences with potentially more divergence. The branches with 0 lengths are fine because they may reflect the fact that there is no difference between these species in the protein you analyze. ...
written 7 months ago by Cacau390
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Comment: C: Extract Note and symbol from gff3 file of Araport11 in Arabiopsis thaliana
... I would encourage you to ask Araport11 since it is them who establish all the datasets. ...
written 7 months ago by Cacau390
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Comment: C: Reverse Complement Human Genome Reference
... Yes, perhaps you can do that after mapping by scripts. ...
written 7 months ago by Cacau390
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Comment: C: Zero length branches on a phylogram
... Presumably your sequences have too many identical nucleotides. Try to use data with more divergence. ...
written 7 months ago by Cacau390

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