Sha256: 3920e55fac18a07968d4d3a6ee5dd263a2080359edc3ff5181e479bececb2268
Contents?: true
Size: 1.06 KB
Versions: 8
Compression:
Stored size: 1.06 KB
Contents
ben@u:~/git/priner/spec/data/gapfilling/2$ head -n2 /srv/db/gg/2013_05/gg_13_5_otus/rep_set/97_otus.fasta |sequenceChop.pl - 1 1000 >reference_part1.fa Chopped 1 sequence(s) ben@u:~/git/priner/spec/data/gapfilling/2$ head -n2 /srv/db/gg/2013_05/gg_13_5_otus/rep_set/97_otus.fasta |sequenceChop.pl - 1 1000 >reference_part2.fa Chopped 1 sequence(s) ben@u:~/git/priner/spec/data/gapfilling/2$ head -n2 /srv/db/gg/2013_05/gg_13_5_otus/rep_set/97_otus.fasta |sequenceChop.pl - 1000 1100 >1111883_chopped_1000-1100 CAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACTCTCGCTCCCAGTTGCCAGCGGTTCGGCCGGGG Chopped 1 sequence(s) # inserted this sequence into part2, overwriting some bases in the middle # simulating reads with minilinium's sammy sequence simulator ben@u:~/git/priner/spec/data/gapfilling/2$ ~/git/sammy/sammy.pl -r reference.fa -n 1000 -i 300 |pigz >sammy_reads.fa.gz ben@u:~/git/priner/spec/data/gapfilling/2$ zcat sammy_reads.fa.gz |seqmagick info - name alignment min_len max_len avg_len num_seqs - TRUE 100 100 100.00 402
Version data entries
8 entries across 8 versions & 1 rubygems