Difference between revisions of "Darmor Tapidor"
Philippbayer (talk | contribs) (Created page with "<placeholder page> Link to fasta of chromosomes, annotations") |
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| − | + | This page collects the files for | |
| − | + | == Assemblies == | |
| + | |||
| + | Tapidor | ||
| + | |||
| + | pseudo-molecules | ||
| + | collections of contigs | ||
| + | |||
| + | Darmor | ||
| + | |||
| + | pseudo-moleculues | ||
| + | collections of contigs | ||
| + | |||
| + | == Annotation == | ||
| + | |||
| + | Genes and proteins were renamed from the MAKER names to the [Brassica standard|http://www.brassica.info/info/genome_annotation.php] | ||
| + | |||
| + | Tapidor_v63_assembly.all.gff.gz - this contains all unfiltered MAKER gene models as reported by <nowiki>gff3_merge -n -g</nowiki> | ||
| + | |||
| + | Tapidor_v63_assembly.all.maker.proteins.fasta.gz - all unfiltered proteins as reported by <nowiki>fasta_merge</nowiki> | ||
| + | |||
| + | Tapidor_v63_assembly.all.maker.transcripts.fasta.gz - same, but transcripts | ||
| + | |||
| + | Tapidor_v63_assembly.all.maker.proteins_250bp_repeats_filtered.fasta.gz - all proteins as reported by MAKER, removed when covered for more than 50% by a RepBase repeat, or when shorter than 250 bp | ||
| + | |||
| + | Tapidor_v63_assembly.all.maker.transcripts_250bp_repeats_filtered.fasta.gz - same as above but transcripts | ||
| + | |||
| + | Tapidor_v63_assembly.all_250bp_repeats_filtered.gff.gz - same as above but gff3 file | ||
Revision as of 01:53, 7 March 2016
This page collects the files for
Assemblies
Tapidor
pseudo-molecules collections of contigs
Darmor
pseudo-moleculues collections of contigs
Annotation
Genes and proteins were renamed from the MAKER names to the [Brassica standard|http://www.brassica.info/info/genome_annotation.php]
Tapidor_v63_assembly.all.gff.gz - this contains all unfiltered MAKER gene models as reported by gff3_merge -n -g
Tapidor_v63_assembly.all.maker.proteins.fasta.gz - all unfiltered proteins as reported by fasta_merge
Tapidor_v63_assembly.all.maker.transcripts.fasta.gz - same, but transcripts
Tapidor_v63_assembly.all.maker.proteins_250bp_repeats_filtered.fasta.gz - all proteins as reported by MAKER, removed when covered for more than 50% by a RepBase repeat, or when shorter than 250 bp
Tapidor_v63_assembly.all.maker.transcripts_250bp_repeats_filtered.fasta.gz - same as above but transcripts
Tapidor_v63_assembly.all_250bp_repeats_filtered.gff.gz - same as above but gff3 file
