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| CURVE2HINTS(1) | CURVE2HINTS(1) |
NAME¶
curve2hints - tool to make exon segmentation and grouping the exons together to form AUGUSTUS hints
SYNOPSIS¶
curve2hints --in=file --outexons=out.gff --c=int --s=float
OPTIONS¶
--in=s
iput file is single file containing tracks in wig
format
--outexons=s
file for the output segmentaion
--c
specify the threshold to distinguish between introns and
exons in terms of coverage depths (default 4)
--s
specify the ratio (1-lambda1)/(1-lambda2) It
should be >1 (default 1.12)
--z
specify the chunk size (default value 50000)
--r
To enable re-estimation of distribution from the output
produced
--train_file
Specify the gff file to be used for training the
distributions.It should contain the position of both introns and exons
--bed_file
Specify the output bedfile which contains the position of
gene jumps (default: output.bed)
--augustus_hints
Specify the output augustus hint file(default:
augustus_hints.gff)
AUTHORS¶
AUGUSTUS was written by M. Stanke, O. Keller, S. König, L. Gerischer and L. Romoth.
ADDITIONAL DOCUMENTATION¶
An exhaustive documentation can be found in the file /usr/share/augustus/README.TXT.