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fml-asm - assemble Illumina short reads in small regions

FML-ASM(1) User Commands FML-ASM(1)

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]
-A
discard heterozygotes (apply this to assemble bacterial genomes)
June 2017 fml-asm 0.1