post-assemble~coverage-length-graph

Create a graph of coverage and contig length to check the contamination of the assembled contig.

input_1:FASTA

input_1/ecoli.pilon.ERR348742.fasta

>Consensus_tig00000001_pilon
AATGGAAAACGACAGCACGCTGCTGCCTTCAATGCTTTGCGCGCCAACGTGAAGCGGTAAGCGAATGGCTGTACCGCCAT
CATGATGTTCCGGCAGACGACGATGAAACGCAGGCGCTGTTACGTCGCGATTCGTTATAACCGCGAAGAAGATATCGATG
TTACGGCGAGCAGTTCAGTCTTTCCTCACTGGCACAGTACATTGATGATCAGAAGAAGTGTGGTTTGTGAAATCACCAAA
ATCGTTCCTCGGTGCCAGCGGCTTAAACCGCAGGTAGCGCTGTTTGAGGATCTGGTCTGCGCAATGATGTTGCACATTCG
CCAGCAGGCGGGCTGCGAAGCGATTACTCAGGCGGTGATTGGTCGTCCGATCAACTTCCGTGGGCTGGGCGGTGATGAAG
CACCCGAGCGCAGGGATTCTGGAACGCGCGGCGAAGCGTGCCGGATTCAGGGACGTGGTATACGAGCCGGTCGCGGCTGG
GCTGGATTACGAAGCCACCTTGCAGGAAGAAAACGGGTGCTGGTGGTGGATATCGGCGGTGGTACGACTGACTGTTCATT
GCTGCTGATGGGGCCGCAGTGGCGTTCTCGATCGTGAAGCCAGCCTGCTGGGTCACAGTGGTTGCCGTATTGGCGGTAAC
GATCTGGATATCGCGCTGGCGTTTAAAACCTGATGCCACTGCTGGGTATGGGTGGCGAAACCGAAAAGGCATCGCCCTGC

input_2:Forward FASTQ(.gz)

input_2/DRR015801_1.fastq.gz

input_3:Reverse FASTQ(.gz)

input_3/DRR015801_2.fastq.gz

Option

-c "8" -m "32"

Output

DRR015801_1.fastq.gz.sam2.cov.png

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