User: yaghoub.amraei
yaghoub.amraei • 10
- Reputation:
- 10
- Status:
- New User
- Location:
- Last seen:
- 1 week, 2 days ago
- Joined:
- 2 years, 2 months ago
- Email:
- y*************@gmail.com
Posts by yaghoub.amraei
<prev
• 27 results •
page 1 of 3 •
next >
0
votes
0
answers
143
views
0
answers
Comment:
C: extract stem-loop fasta sequence
... thank you for comment ...
written 4 months ago by
yaghoub.amraei • 10
0
votes
0
answers
143
views
0
answers
... Hello to all
I have a series of Small RNA-seq data that was actually the output of the mapping reads Small RNA-seq with mirbase database by Genomic CLC software. Now I need to use the mapping output to get the sequences conseve using the accession number of the stem-loop structures on the mirbase da ...
written 4 months ago by
yaghoub.amraei • 10
0
votes
0
answers
197
views
0
answers
...
hello. amazing, as usual. ...
written 4 months ago by
yaghoub.amraei • 10
0
votes
0
answers
167
views
0
answers
... Hello everyone .. My goal is to identify LncRNA in rice plants. In some articles, they have used the output of cuffcompare or cuffmerge. If we use the output of the cufffmerge, we can only use intergenic LncRNA with class_code (u) and LncRNA on the antisense string (Lnc-NATs) with class_code (x). Bu ...
written 4 months ago by
yaghoub.amraei • 10
0
votes
0
answers
197
views
0
answers
... my gold is LncRNA detection. The number of each line in the GTF file, of which I want to identify the LncRNA, is about 50,000 transcripts, and when I get the Festa file with GFF, I have about 17,000 transcripts. That is, GFFRID gives the Festa file based on a transcript, not based on the gene distan ...
written 4 months ago by
yaghoub.amraei • 10
0
votes
0
answers
197
views
0
answers
... Hello everyone ... I have a cuffcompare output that has the same genes names and transcripts names, but the gene distance of each transcript is different with the same name. How can I get the fastasequence of any genes distance with the Bad Tools or GFF Read package?
1 Cufflinks exon 58474 6119 ...
written 4 months ago by
yaghoub.amraei • 10
0
votes
0
answers
200
views
0
answers
... hello. amazing, as usual. ...
written 4 months ago by
yaghoub.amraei • 10
0
votes
0
answers
200
views
0
answers
... 1 Cufflinks exon 2899 3255 . + . gene_id "XLOC_000001"; transcript_id "TCONS_00000002"; exon_number "1"; gene_name "Os01g0100100"; oId "CUFF.7.2"; nearest_ref "Os01t0100100-01"; class_code "j"; tss_id "TSS1";
1 Cufflinks exon 3354 3616 . + . gene_id "XLOC_000001"; transcript_id "TCONS_00000002"; exo ...
written 4 months ago by
yaghoub.amraei • 10
0
votes
0
answers
200
views
0
answers
... آHi all. I have a cuffcompare output and I want to extract the transcript_id andgene_id in column 9, which is a string, using grep or AWK. Thank you for your guidance
1 Cufflinks exon 2899 3255 . + . gene_id "XLOC_000001"; transcript_id "TCONS_00000002"; exon_number "1"; gene_name "Os01g0100100 ...
written 4 months ago by
yaghoub.amraei • 10
0
votes
1
answer
322
views
1
answers
... It was great .. Thank you ...
written 5 months ago by
yaghoub.amraei • 10
Latest awards to yaghoub.amraei
Popular Question
8 weeks ago,
created a question with more than 1,000 views.
For trim data with trimmomatic
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 2095 users visited in the last hour