User: craigmonger

gravatar for craigmonger
craigmonger10
Reputation:
10
Status:
New User
Location:
Last seen:
1 month, 2 weeks ago
Joined:
5 months, 3 weeks ago
Email:
c**********@live.co.uk

Posts by craigmonger

<prev • 3 results • page 1 of 1 • next >
0
votes
1
answers
843
views
1
answers
Comment: C: DESeqDataSetFromTximport: Error in checkSlotAssignment
... I had this issue. Turns out I had the new version installed on my machine as the root user but an older version of DESeq2 and BioCinstaller in my ~/R/x86_64-pc-linux-gnu-library/3.4. Manually removed the packages from my users local R library and reran bioClite() then it worked. ...
written 7 weeks ago by craigmonger10
0
votes
1
answers
346
views
1
answers
Answer: A: DEXSeq prepare annotation on Stringtie outputGTF - KeyError: 'gene_id'
... I think this problem was caused by a GTF file not adhering to standards. Solved this issue by using the script posted by Persistent LABS here https://www.biostars.org/p/224372/ to rewrite the gene lines into the GTF file. This however caused some transcript lines to be duplicated because of the pr ...
written 5 months ago by craigmonger10
2
votes
1
answer
346
views
1
answer
DEXSeq prepare annotation on Stringtie outputGTF - KeyError: 'gene_id'
... I am trying to use DEXSeq on the gtf output from stringtie but am getting an error when trying to create the flattened annotation file. Please find below an example of my commands and input data. Thanks in advance for any help with this issue. The command I am using is: python dexseq_prepare_anno ...
dexseq written 5 months ago by craigmonger10

Latest awards to craigmonger

Scholar 5 months ago, created an answer that has been accepted. For A: DEXSeq prepare annotation on Stringtie outputGTF - KeyError: 'gene_id'

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 152 users visited in the last hour