User: LT

gravatar for LT
LT10
Reputation:
10
Status:
New User
Location:
South Africa
Last seen:
1 week ago
Joined:
3 weeks, 2 days ago
Email:
l*****************@gmail.com

Posts by LT

<prev • 6 results • page 1 of 1 • next >
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Answer: A: phytozome gtf file
... Have you managed to overcome the problem you had with the gtf file created from gff3? Did it finally run successfully? I have the same problem with my sorghum gff3 file. ...
written 8 days ago by LT10
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Comment: C: How to Run the Script for Extracting Splice Sites from the Gene Annotation File
... Thanks genomax for your explanation of what "sed" is. So let me try to use it and see what happens. ...
written 18 days ago by LT10
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Comment: C: How to Run the Script for Extracting Splice Sites from the Gene Annotation File
... Thanks Renesh and genomax - very much appreciated! ...
written 18 days ago by LT10
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Comment: C: How to Run the Script for Extracting Splice Sites from the Gene Annotation File
... Thanks for your input @ george.ry. So how does sed work? Does it mean direct subtitution of "_ID" with "_id". I was intending to just manually replace "_ID" with "_id" hoping the implemented changes would enable the script to work. I haven't done that yet. So I am really not sure what to do right no ...
written 18 days ago by LT10
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Answer: A: How to Run the Script for Extracting Splice Sites from the Gene Annotation File
... Thanks guys for your answers - very much appreciated. st.ph.n - to answer your question as to where I got the extract_splice_sites.py, I would say the script comes with the HISAT package. I think it basically helps to improve your mapping. One has to perfom this step although in my opinion performi ...
written 18 days ago by LT10
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How to Run the Script for Extracting Splice Sites from the Gene Annotation File
... Hi Biostars Community, I struggle with running the script (extract_splice_sites.py Sbicolor_313_v3.1.gene.gtf > Sbicolor_313_v3.1.splicesites.txt) for extracting the splice sites from my gene annotation file. I was initially advidsed to convert my gene annotation file (Sbicolor_313_v3.1.gff3) to ...
software error alignment rna-seq written 21 days ago by LT10

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