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<prev • 204 results • page 1 of 7 • next >
3
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167
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using awk to extract a specific pattern
gff awk extract parsing written 5 days ago by Toto26 • 10
1
vote
1
answer
89
views
1
answer
bedtools getfasta (how to get only cds coding sequence)
mac fasta gff written 5 days ago by benjamin • 0
0
votes
1
answer
176
views
1
answer
How to generate a new FASTA from an assembly-assembly mapping ?
assembly gff samtools mapping sequencing written 9 weeks ago by maxime.policarpo • 20 • updated 8 weeks ago by tdmurphy • 80
0
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0
answers
168
views
0
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MCScanX not read input files
mcscanx gff synteny blastp written 10 weeks ago by a.e.wright • 0
1
vote
1
answer
188
views
1
answer
GFF to fasta
perl annotation gff sequencing genome written 11 weeks ago by mmats010 • 50
2
votes
2
answers
269
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2
answers
GFF to TBL file conversion for annotation submission
ncbi annotation gff genome written 11 weeks ago by arsilan324 • 40
0
votes
1
answer
221
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1
answer
How to extract all promoter regions in multi-fasta format from genome using GFF?
genome fasta gff promoter written 12 weeks ago by rimgubaev • 0 • updated 12 weeks ago by shoujun.gu • 310
0
votes
0
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139
views
0
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How to crop gff feature into pieces when an overlap is found
bedtools annotation gff bedops genome written 3 months ago by rimjhim.roy.ch • 50
2
votes
1
answer
844
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5 follow
1
answer
Read counts of STAR with gff file
gff read-counts star written 9 months ago by grant.hovhannisyan • 730
0
votes
2
answers
234
views
2
answers
comparing annotations between genomes.
annotation gff crossmap liftover written 4 months ago by Ric • 180
0
votes
1
answer
311
views
1
answer
Frame of CDS on reverse strand: I don't get it or is there a problem in file?
frame gff reverse strand written 4 months ago by saintpierre.bioinfo • 0
0
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0
answers
317
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0
answers
Looking for a thorough annotation for non-primary assembly units in GRCm38
gtf mus musculus grcm38 gff gencode written 5 months ago by erwan.scaon • 490
2
votes
1
answer
726
views
7 follow
1
answer
Tool to generate a chain file from an agp file
agp crossmap gff chain written 17 months ago by greentailedmouse • 40 • updated 5 months ago by Malcolm.Cook • 790
2
votes
1
answer
489
views
1
answer
htseq-count error Feature does not contain a 'gene_id' attribute
htseq gff read count rna-seq written 5 months ago by madzayasodara • 0 • updated 5 months ago by WouterDeCoster ♦ 27k
1
vote
0
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337
views
0
answers
Error reading gff file into R (with read.gff from the ape package)
genome R gff written 5 months ago by ramiroricardo • 0 • updated 5 months ago by WouterDeCoster ♦ 27k
0
votes
0
answers
275
views
0
answers
Repeat masked GFF3 not being converted to GTF
gtf gff3 gff cufflinks written 5 months ago by james.lloyd • 80
5
votes
1
answer
1.6k
views
1
answer
Cufflinks gffread utility
gff cufflinks reverse complement gffread written 23 months ago by Thomas • 90 • updated 5 months ago by Kevin Blighe ♦ 17k
1
vote
0
answers
908
views
0
answers
phytozome gtf file
genome assembly gff next-gen plant written 24 months ago by anjanaram1 • 70 • updated 6 months ago by LP • 10
0
votes
0
answers
297
views
0
answers
Why does my genome annotation file contain only one type of feature? (i.e. mol_type=genomic DNA)
genome annotation gff written 6 months ago by molly77 • 10
0
votes
0
answers
345
views
0
answers
GFF from tabular Blast output
gff tabix blast igv written 7 months ago by salvatore.lachina • 0
0
votes
0
answers
392
views
0
answers
RSEM with prokaryotes
gtf genome gff rsem annotation written 7 months ago by csmatyi1 • 0 • updated 7 months ago by Devon Ryan ♦ 78k
0
votes
0
answers
396
views
0
answers
How to get flanking exon coordinate based on gencode gtf/gff or biomart
gtf annotation biomart gff gencode written 8 months ago by ZheFrench • 120
1
vote
1
answer
373
views
1
answer
help with Gene Bank annotation and GFF file
gff genebank rna-seq written 8 months ago by hamaor • 0 • updated 8 months ago by h.mon ♦ 13k
0
votes
2
answers
1.5k
views
2
answers
gff3 to gtf
gtf gff next-gen written 23 months ago by luanabarbos • 0 • updated 9 months ago by grant.hovhannisyan • 730
5
votes
0
answers
643
views
0
answers
Gff file error in HTSeq-count
gff htseq count written 10 months ago by y.gladbach • 0 • updated 9 months ago by Biostar ♦♦ 20
1
vote
1
answer
386
views
1
answer
Any good parser with Python??
fasta python gff biopython written 10 months ago by lessismore • 470 • updated 10 months ago by badribio • 230
0
votes
0
answers
802
views
0
answers
gffread "Error (GFaSeqGet): end coordinate (76134) cannot be larger than sequence length 76132"
gff cufflink gffread written 11 months ago by qwzhang0601 • 50 • updated 10 months ago by elaak91 • 0
3
votes
4
answers
613
views
4
answers
Mapping between genomic coordinates to transcriptomic coordinates
vcf gtf gff snp written 11 months ago by MMa • 230 • updated 11 months ago by cmdcolin • 760
0
votes
1
answer
416
views
1
answer
How to select specific values (features and attributes) from gtf/gff file and convert it into table like data?
gtf gff attributes features written 12 months ago by kirannbishwa01 • 780 • updated 11 months ago by h.mon ♦ 13k
0
votes
1
answer
338
views
1
answer
Ortholog Map from Whole Genome Alignment (WGA)
annotation gff alignment wga ortholog written 12 months ago by Felix Bemm • 10
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