Difference between revisions of "Darmor Tapidor"

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(Filtered annotation)
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[http://appliedbioinformatics.com.au/download/DarmorTapidor/ListOfBadPfamDomains.txt List of Transposase related PFAM IDs]
 
[http://appliedbioinformatics.com.au/download/DarmorTapidor/ListOfBadPfamDomains.txt List of Transposase related PFAM IDs]
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=== Tapidor ===
 
=== Tapidor ===
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No AED=1 scores, transcripts longer than 100 bp, no Transposase domains  
 
No AED=1 scores, transcripts longer than 100 bp, no Transposase domains  
  
[http://appliedbioinformatics.com.au/download/DarmorTapidor/Darmor_v81_assembly.all_noAED1_RepMakAll_no_RepMakOverlap_biggerequal100bp_no_transposase_renamed.gff.gz Darmor_v81_assembly.all_noAED1_RepMakAll_no_RepMakOverlap_biggerequal100bp_no_transposase_renamed.gff.gz] - filtered annotation in GFF
 
  
[http://appliedbioinformatics.com.au/download/DarmorTapidor/Darmor_v81_assembly.all.maker.proteins_noAED1_RepMakAll_no_RepMakOverlap_biggerequal100bp_no_transposase_renamed.fasta.gz Darmor_v81_assembly.all.maker.proteins_noAED1_RepMakAll_no_RepMakOverlap_biggerequal100bp_no_transposase_renamed.fasta.gz] - filtered predicted proteins
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[http://appliedbioinformatics.com.au/download/DarmorTapidor/Darmor_v81_assembly.augustus_masked_filtered.gff.gz  Darmor_v81_assembly.augustus_masked_filtered.gff.gz] - filtered predicted annotation in GFF format
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 +
[http://appliedbioinformatics.com.au/download/DarmorTapidor/Darmor_v81_assembly.all.maker.augustus_masked.transcripts_filtered.fasta.gz Darmor_v81_assembly.all.maker.augustus_masked.transcripts_filtered.fasta.gz] - filtered predicted transcripts
 +
 
 +
[http://appliedbioinformatics.com.au/download/DarmorTapidor/Darmor_v81_assembly.all.maker.augustus_masked.proteins_filtered.fasta.gz Darmor_v81_assembly.all.maker.augustus_masked.proteins_filtered.fasta.gz] - filtered predicted proteins
  
[http://appliedbioinformatics.com.au/download/DarmorTapidor/Darmor_v81_assembly.all.maker.transcripts_noAED1_RepMakAll_no_RepMakOverlap_biggerequal100bp_no_transposase_renamed.fasta.gz Darmor_v81_assembly.all.maker.transcripts_noAED1_RepMakAll_no_RepMakOverlap_biggerequal100bp_no_transposase_renamed.fasta.gz] - transcripts
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[http://appliedbioinformatics.com.au/download/DarmorTapidor/Darmor_v81_assembly.all.maker.snap_masked.proteins_Pfam_results.gff.gz Darmor_v81_assembly.all.maker.snap_masked.proteins_Pfam_results.gff.gz] - PFam results for filtered predicted proteins

Revision as of 08:10, 9 September 2016

This page collects the files for Bayer et al. B. napus Darmor/Tapidor genome paper

Software

Collinearity analysis - Collinearity_scripts.zip

LASTZSorter.py LASTZSorter.py

Annotation

List of Transposase related PFAM IDs


Tapidor

Tapidor_v63_assembly.fasta.gz - assembly as pseudo-molecules

Filtered annotation

No AED=1 scores, transcripts longer than 100 bp, no Transposase domains

Tapidor_v63_assembly.augustus_masked_filtered.gff.gz - filtered predicted annotation in GFF format

Tapidor_v63_assembly.all.maker.augustus_masked.transcripts_filtered.fasta.gz - filtered predicted transcripts

Tapidor_v63_assembly.all.maker.augustus_masked.proteins_filtered.fasta.gz - filtered predicted proteins

Tapidor_v63_assembly.all.maker.snap_masked.proteins_Pfam_results.gff.gz - PFam results for filtered predicted proteins

Darmor

Filtered annotation

No AED=1 scores, transcripts longer than 100 bp, no Transposase domains


Darmor_v81_assembly.augustus_masked_filtered.gff.gz - filtered predicted annotation in GFF format

Darmor_v81_assembly.all.maker.augustus_masked.transcripts_filtered.fasta.gz - filtered predicted transcripts

Darmor_v81_assembly.all.maker.augustus_masked.proteins_filtered.fasta.gz - filtered predicted proteins

Darmor_v81_assembly.all.maker.snap_masked.proteins_Pfam_results.gff.gz - PFam results for filtered predicted proteins