User: Flashton

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Flashton0
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Posts by Flashton

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Comment: C: Any tools converting Genbank format to GFF3 format?
... Updated version of the "canonical" URL https://github.com/bioperl/bioperl-live/blob/master/bin/bp_genbank2gff3 ...
written 28 days ago by Flashton0
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Comment: C: Remove Invalid Nucleotides From Fasta File
... More info http://biopython.org/wiki/Sequence_Cleaner and http://www.regular-expressions.info/python.html ...
written 7.8 years ago by Flashton0
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Answer: A: Remove Invalid Nucleotides From Fasta File
... A colleague helped me do this in quite a neat way using regular expressions in python (biopython required). from Bio import SeqIO import re handle = open("/Users/phil/Documents/Infernal/NCBI_nr_clean.fasta", "rU") sequences={} for record in SeqIO.parse(handle, "fasta") : #replace any non-GAT ...
written 7.8 years ago by Flashton0
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Answer: A: Cufflinks / Cuffdiff Output - How Are Tests Different?
... Hi Stephen, I'm afraid I can't help you with your question (other than to suggest there might be two streams of analysis, one for ORFs and another for CDSs). However, I was hoping you can shed some light on why you used Cuffdiff for your analysis rather than DESeq, EdgeR or BaySeq. I'm about to emba ...
written 8.8 years ago by Flashton0

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Autobiographer 7.8 years ago, has more than 80 characters in the information field of the user's profile.

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