assemble~SPAdes

SPAdes - St. Petersburg genome assembler - is an assembly toolkit containing various assembly pipelines. This manual will help you to install and run SPAdes.

input_1:paired-end FASTQ

input_1/DRR015801_1.fastq.gz

input_1/DRR015801_2.fastq.gz

input_2:single-end FASTQ

Option

-c 15 -m 200 input_1/

Output

output_dir/scaffolds.fasta

>NODE_1_length_136573_cov_91.117457
AACACACTGTCACTTGACGCAGGGCTGAAAGTTCTACAGCAACGGTATACCAATATGATA
ATGGTTTACTAAATTTTCTGGGGATCCCTCAGCAGTAATCCCCCCTCTTCAACCTGAACT
TCATGCGACGGTGCATATTGCTGTTCCACCGGCAGTTCGGGATCTTCCCGATGTTCCAGC
AATTCAGGCTGTTCGCACAGCTTGCGATGCAACGAACCACCGGTTGCCACCACCAGTTCC
TGTAAACCCCGGCAGATGGCGAAAATGGGGATGCGCCTTTCGAGTGCGGCATTAATTAAC
GCCATGCTCAGAAGATCACGCCCGGGATCGGCGTCAGGCTCATCGCCGTTTTCACCATAT
AGGTGCGGCTGCACATTGCTGGGACTACCAGGAAGATAAATGCCATCGAGTTTCGGCAAA
AGTTGTTCAAGTAAGGACGGTTCCGCCAGCGCATGTGGCAGCGCAATTGGCAAACCGCCT
GCGTGGATGATGGCATTCAGGTACTTTTCTTGCAGAGTCTGGGTCGCATGACCCTTAAGC

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