📦 augustus

A

• aln2wig(1)convert alignments to wig files✨
• augustus(1)a gene prediction tool✨

B

• bam2hints(1)convert mRNA-to-genome alignments in BAM format into a hint file for AUGUSTUS✨
• bam2wig(1)Convert bam files to wiggle files. Can be used to generate exonpart hints for AUGUSTUS.✨

C

• compileSpliceCands(1)Find introns parsing a set of exon candidates in GFF format✨

E

• etraining(1)train AUGUSTUS models✨

F

• fastBlockSearch(1)search loci matching protein block profiles✨
• filterBam(1)filter BAM file for use with AUGUSTUS tools✨

G

• getSeq(1)print genome sequences from databases on the standard output✨

H

• homGeneMapping(1)create summary of gene homology✨

J

• joingenes(1)merge several gene sets into one✨

L

• load2db(1)load genome sequences and extrinsic evidence hints into a MySQL database✨
• load2sqlitedb(1)load genome sequences and extrinsic evidence hints into a SQLite database✨

P

• pp_simScore(1)print similarity and alignments for block-profile and protein sequence on the standard output✨
• prepareAlign(1)prepare an alignment for block profile creation by deleting gap-rich rows✨