Genome | Stampy parameters |
---|---|
E.coli (format genome) | -G ecoli ecoli_K12_MG1665.fasta |
(hash) | -g ecoli -H ecoli |
(simulate) | -g ecoli -h ecoli -S SRR522163_1.fastq |
Human (format genome) | -G hs_ref_GRCh37.p13_chr1 |
 | hs_ref_GRCh37.p13_chr1.fa |
(hash) | -g hs_ref_GRCh37.p13_chr1 |
 | -H hs_ref_GRCh37.p13_chr1 |
(simulate) | -g hs_ref_GRCh37.p13_chr1 |
 | -h hs_ref_GRCh37.p13_chr1 |
 | -S ERR315985_to_ERR315997_1.fastq |
Divergence | Â |
.1 | –substitutionrate=.1 |
.2 | –substitutionrate=.2 |
.3 | –substitutionrate=.3 |
.1+gaps | –substitutionrate=.1 –simulate-minindellen=-30 |
 | –simulate-maxindellen=30 –insertsize=250 |
 | –insertsd=25 |
.2+gaps | –substitutionrate=.2 –simulate-minindellen=-30 |
 | –simulate-maxindellen=30 –insertsize=250 |
 | –insertsd=25 |
.3+gaps | –substitutionrate=.3 –simulate-minindellen=-30 |
 | –simulate-maxindellen=30 –insertsize=250 |
 | –insertsd=25 |