Man page - fml-asm(1)

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Package:  fml-asm
apt-get install fml-asm

Manuals in package:
• fml-asm(1)
Documentations in package:
• fml-asm

Manual

FML-ASM

NAME
SYNOPSIS
OPTIONS

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NAME

fml-asm - assemble Illumina short reads in small regions

SYNOPSIS

fml-asm [ options ] <in.fq>

OPTIONS

-e INT

k-mer length for error correction (0 for auto; -1 to disable) [0]

-c INT1[,INT2]

range of k-mer & read count thresholds for ec and graph cleaning [4,8]

-l INT

min overlap length during initial assembly [33]

-r FLOAT

drop an overlap if its length is below maxOvlpLen*FLOAT [0.7]

	-t INT		number of threads (don’t use multi-threading for small data sets) [1]
	-d INT		retain a bubble if one side is longer than the other side by >INT-bp [50]
	-A		discard heterozygotes (apply this to assemble bacterial genomes; override -O )
	-O		don’t apply aggressive tip trimming
	-g		output the assembly graph in the GFA format

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