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NBISweden
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AGAT
Another Gtf/Gff Analysis Toolkit
GNU General Public License v3.0
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fix #420. Now table 0 can be called (bioperl >= april 2024 must be pr…
#470
Juke34
closed
2 days ago
0
how to convert a annotation file of gtf format into gff3 format
#469
RezwanCAAS
closed
6 days ago
3
How to merge two genes with overlapping positions but no overlapping CDS?
#468
binzhengbin
opened
1 week ago
9
Unknown/additional features in GFF2GTF conversion
#467
sivasubramanics
closed
6 days ago
3
fix #401
#466
Juke34
closed
3 weeks ago
0
fix mispelling script name in doc. fix #456
#465
Juke34
closed
3 weeks ago
0
426
#464
Juke34
closed
3 weeks ago
0
458
#463
Juke34
closed
4 weeks ago
0
function
#462
fanhuan
closed
4 weeks ago
2
agat_sp_manage_functional_annotation.pl stuck at diamond results transfering
#461
Gequris
closed
4 weeks ago
0
Undefined subroutine &main::prepare_gffout called at agat_convert_sp_gxf2gxf.pl line 52.
#459
karthickbrlab
opened
1 month ago
1
rename agat_sp_fix_cds_frame.pl to agat_sp_fix_cds_phase.pl in documentation
#458
webbchen
closed
4 weeks ago
0
agat_sp_merge_annotations.pl output incompatible with cellranger
#457
LliliansCalvo
closed
6 days ago
1
Incorrect name found in help for agat_sp_filter_feature_by_attribute_presence.pl
#456
tonyaseverson
closed
3 weeks ago
0
agat_convert_mfannot2gff.pl produces wrong coordinate for feature starts/ends at position 1
#455
KeFungi
opened
1 month ago
2
New citations
#454
dirkjanvw
closed
1 month ago
1
Update agat_convert_minimap2_bam2gff.md
#452
Juke34
closed
2 months ago
0
`agat_sp_extract_sequences.pl`: support for multicistronic transcripts.
#451
jdcla
opened
2 months ago
0
agat_sp_extract_sequences.pl does not incorporate CDS feature ID in headers
#450
jdcla
opened
2 months ago
5
Functional annotation, merge annotations: how to keep original IDs
#453
EmilieSmeets22
closed
1 month ago
5
fix #448 long term issue related to bioperl parser( for GFF2 and GFF2.5)
#449
Juke34
closed
2 months ago
0
Bug when file parsed with GFF2 and GFF2.5
#448
Juke34
closed
2 months ago
1
Fix 445 buggit add lib/AGAT/OmniscientI.pm Few gene in output due to…
#447
Juke34
closed
3 months ago
0
445 bug version 1.3.2
#446
Juke34
closed
3 months ago
0
Version 1.3.2 may stop and end up with few genes in the output
#445
Juke34
closed
3 months ago
1
agat_sp_compare_two_annotations gene number was inconsistent
#444
dongdongdong0203
closed
3 months ago
4
Rendering
#443
Juke34
closed
3 months ago
0
fix #441 use L3 feature instead to L1 as template to create features when transcript_id exists
#442
Juke34
closed
3 months ago
2
wrong transcript_id when outputting GTF when level2 and level1 features are missing
#441
Juke34
closed
3 months ago
0
agat_sp_fix_overlaping_genes.pl says no overlapping genes found
#440
Rohit-Satyam
closed
3 months ago
2
AGAT takes >12 hours on some GFFs on HPC
#439
chriswyatt1
closed
3 months ago
3
add parameter to clean Name,product,dbxref,product attributes. Append…
#438
Juke34
closed
3 months ago
0
Agat sp compare two annotations 435
#437
Juke34
closed
3 months ago
0
manage_functional_annotation deletes Name attribute
#436
Neato-Nick
closed
3 months ago
0
can "agat_sp_compare_two_annotations.pl" output ID lists for each type of genes?
#435
HouYan20
closed
3 months ago
2
Converting .gff to .gtf for CellRanger
#434
matejasoretic
closed
3 months ago
10
agat_convert_minimap2_bam2gff.pl doesn't find samtools in the singularity image
#433
qhelleu
closed
4 months ago
2
Update doc
#432
Juke34
closed
4 months ago
0
Doc
#430
Juke34
closed
4 months ago
0
update agat_sp_add_start_and_stop.pl
#429
Juke34
closed
4 months ago
0
AGAT gtf2gff on braker3 output
#428
ARW-UBT
closed
4 months ago
2
agat_convert_sp_gff2gtf.pl generates errors
#427
fpichon
closed
4 months ago
4
agat_sp_filter_feature_by_attribute_value.pl should be able to filter by multiple values
#426
Mitmischer
closed
3 weeks ago
5
fix 424 - bug in agat_sp_complement_annotations.pl / check_feature_overlap_from_l3_to_l1
#425
Juke34
closed
4 months ago
0
`agat_sp_complement_annotations.pl` does not complement but concatenate?
#424
dirkjanvw
closed
4 months ago
5
sort features
#423
Juke34
closed
4 months ago
0
Parsing of the X CIGAR code in bam files
#422
sanyalab
closed
4 months ago
2
Guidance to convert GTF to GFF
#421
Juke34
closed
4 months ago
1
agat_sp_fix_longest_ORF.pl default codon table
#420
jvolkening
closed
2 days ago
11
Unable to convert GFF to GFT
#419
MrLocuace
closed
4 months ago
11
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