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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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agat_sp_merge_annotations.pl output incompatible with cellranger
#457
LliliansCalvo
opened
6 months ago
26
Incorrect name found in help for agat_sp_filter_feature_by_attribute_presence.pl
#456
tonyaseverson
closed
5 months ago
0
agat_convert_mfannot2gff.pl produces wrong coordinate for feature starts/ends at position 1
#455
KeFungi
closed
2 months ago
2
New citations
#454
dirkjanvw
closed
6 months ago
1
Update agat_convert_minimap2_bam2gff.md
#452
Juke34
closed
7 months ago
0
`agat_sp_extract_sequences.pl`: support for multicistronic transcripts.
#451
jdcla
opened
7 months ago
0
agat_sp_extract_sequences.pl does not incorporate CDS feature ID in headers
#450
jdcla
opened
7 months ago
5
Functional annotation, merge annotations: how to keep original IDs
#453
EmilieSmeets22
closed
6 months ago
5
fix #448 long term issue related to bioperl parser( for GFF2 and GFF2.5)
#449
Juke34
closed
7 months ago
0
Bug when file parsed with GFF2 and GFF2.5
#448
Juke34
closed
7 months ago
1
Fix 445 buggit add lib/AGAT/OmniscientI.pm Few gene in output due to…
#447
Juke34
closed
8 months ago
0
445 bug version 1.3.2
#446
Juke34
closed
8 months ago
0
Version 1.3.2 may stop and end up with few genes in the output
#445
Juke34
closed
8 months ago
1
agat_sp_compare_two_annotations gene number was inconsistent
#444
dongdongdong0203
closed
8 months ago
4
Rendering
#443
Juke34
closed
8 months ago
0
fix #441 use L3 feature instead to L1 as template to create features when transcript_id exists
#442
Juke34
closed
8 months ago
2
wrong transcript_id when outputting GTF when level2 and level1 features are missing
#441
Juke34
closed
8 months ago
0
agat_sp_fix_overlaping_genes.pl says no overlapping genes found
#440
Rohit-Satyam
closed
8 months ago
2
AGAT takes >12 hours on some GFFs on HPC
#439
chriswyatt1
closed
8 months ago
3
add parameter to clean Name,product,dbxref,product attributes. Append…
#438
Juke34
closed
8 months ago
0
Agat sp compare two annotations 435
#437
Juke34
closed
8 months ago
0
manage_functional_annotation deletes Name attribute
#436
Neato-Nick
closed
8 months ago
0
can "agat_sp_compare_two_annotations.pl" output ID lists for each type of genes?
#435
HouYan20
closed
8 months ago
2
Converting .gff to .gtf for CellRanger
#434
matejasoretic
closed
8 months ago
10
agat_convert_minimap2_bam2gff.pl doesn't find samtools in the singularity image
#433
qhelleu
closed
8 months ago
2
Update doc
#432
Juke34
closed
9 months ago
0
Doc
#430
Juke34
closed
9 months ago
0
update agat_sp_add_start_and_stop.pl
#429
Juke34
closed
9 months ago
0
AGAT gtf2gff on braker3 output
#428
ARW-UBT
closed
9 months ago
2
agat_convert_sp_gff2gtf.pl generates errors
#427
fpichon
closed
9 months ago
4
agat_sp_filter_feature_by_attribute_value.pl should be able to filter by multiple values
#426
Mitmischer
closed
5 months ago
5
fix 424 - bug in agat_sp_complement_annotations.pl / check_feature_overlap_from_l3_to_l1
#425
Juke34
closed
9 months ago
0
`agat_sp_complement_annotations.pl` does not complement but concatenate?
#424
dirkjanvw
closed
9 months ago
5
sort features
#423
Juke34
closed
9 months ago
0
Parsing of the X CIGAR code in bam files
#422
sanyalab
closed
9 months ago
3
Guidance to convert GTF to GFF
#421
Juke34
closed
9 months ago
1
agat_sp_fix_longest_ORF.pl default codon table
#420
jvolkening
closed
4 months ago
11
Unable to convert GFF to GFT
#419
MrLocuace
closed
9 months ago
11
Problem with GFF to GTF conversion
#417
PavelKiryanov
closed
9 months ago
8
AGAT not working in perl 5.38
#416
kgaisser
opened
10 months ago
7
agat_sp_manage_IDs.pl not sorting properly fix #411
#415
Juke34
closed
10 months ago
3
fix nex readthedocs requirements
#414
Juke34
closed
10 months ago
0
New script to move feature from features of a same record (agat_sp_move_attributes_within_records)
#413
Juke34
closed
10 months ago
5
add script to create ENA compliant file by adding info to CDS, specif…
#412
LucileSol
closed
10 months ago
4
agat_sp_manage_IDs.pl changing the gene number randomly after adding suffix.
#411
kashiff007
closed
10 months ago
3
GN tag and agat_sp_extract_attributes.pl
#409
DiegoSafian
closed
11 months ago
4
AGAT problem converting GFF to GTF
#408
desmodus1984
closed
11 months ago
1
AGAT combine with high duplicated BUSCOs
#407
ld9866
closed
11 months ago
7
agat_sp_complement_annotations.pl couldn't identify the same l1 feature
#406
ChihYingLu
closed
1 year ago
2
STACK: Error::throw
#405
BioHlT
closed
11 months ago
1
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