ONT --Tutorial-Nanopolish-variants
Version 1

Basic workflows inspired by the Nanopolish tutorials

Inputs

ID Name Description Type
reads.fasta reads.fasta n/a n/a
fast5_files.tar.gz fast5_files.tar.gz n/a n/a
draft.fa draft.fa n/a n/a
fastq_input fastq_input runtime parameter for tool Map with minimap2 n/a
reference_source reference_source runtime parameter for tool Map with minimap2 n/a
adv adv runtime parameter for tool Nanopolish variants n/a
adv adv runtime parameter for tool Nanopolish variants n/a
adv adv runtime parameter for tool Nanopolish variants n/a
adv adv runtime parameter for tool Nanopolish variants n/a
adv adv runtime parameter for tool Nanopolish variants n/a
adv adv runtime parameter for tool Nanopolish variants n/a
b b runtime parameter for tool Nanopolish variants n/a
input_merged input_merged runtime parameter for tool Nanopolish variants n/a
input_reads_raw input_reads_raw runtime parameter for tool Nanopolish variants n/a
reference_source reference_source runtime parameter for tool Nanopolish variants n/a

Steps

ID Name Description
0 reads.fasta
1 fast5_files.tar.gz
2 draft.fa
3 Map with minimap2 toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.12
4 Nanopolish variants toolshed.g2.bx.psu.edu/repos/bgruening/nanopolish_variants/nanopolish_variants/0.1.0

Outputs

ID Name Description Type
alignment_output alignment_output n/a bam
output_polished output_polished n/a fasta
output_variants output_variants n/a vcf
help Creators and Submitter
Creator
  • Milad Miladi
Submitter
License
Activity

Views: 90   Downloads: 9

Created: 5th Aug 2020 at 13:52

Last used: 26th Sep 2020 at 19:08

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