Published August 30, 2021
| Version v0.8.0
Software
Open
NBISweden/AGAT: AGAT-v0.8.0
Description
- remove R and R::Statistics from default dependencies because were problematic for conda and heavy while no so much used. If needed, it has to be installed aside.
- update doc
- Fix #97 (agat_convert_sp_gff2bed.pl) add --nc parameter to handle non-coding L2 features
- fix #150 - add information in troubleshooting section about problem related to long sequence line in fasta file
- fix #147 (agat_sp_manage_functional_annotation.pl ) remove dash value from Interpro output
- fix #157 (agat_sp_manage_functional_annotation.pl). Better logging message and fix Regex for PE=
- fix #162 (agat_sp_manage_functional_annotation.pl). Copy the Name, product, Ontology_term, Dbxref and uniprot_id attributes from mRNA to the CDS.
- fix #165 (agat_sp_fix_fusion.pl and agat_sp_fix_overlaping_genes.pl) use the feature instead of the gene_id when calling check_gene_positions to be able to work with any level1 feature type. (AGAT was searching the gene_id for the gene feature type only)
- fix #168 (agat_sp_filter_feature_from_kill_list.pl) check no other l2 linked to l1 before to remove l1
- fix #172 (agat_convert_sp_gxf2gxf.pl). Call --expose without gff input file was crashing.
Files
NBISweden/AGAT-v0.8.0.zip
Files
(21.1 MB)
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md5:076bba044f1256430f1576c05d4a5a90
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Additional details
Related works
- Is supplement to
- https://github.com/NBISweden/AGAT/tree/v0.8.0 (URL)