Miniasm 0.2_r168
Miniasm 0.2_r168
Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly graph in the GFA format.
App Creator
Amanda Cooksey
Quick Start
Miniasm requires the following:
a single fastq file of long reads
a PAF file of all-vs-all read self-mappings
Resources
Test Data
Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> Miniasm
Input File(s)
Fastq file of long reads:
concat_reads.fastq
PAF file
minimap2_output.paf
Parameters Used in App
Enter 'miniasm_out.gfa' in the 'output file name' field.
Set the 'minimum span' to 200.
All other options should remain as default.
Output File(s)
Running the app with the above files and parameters results in a single output file:
miniasm_out.gfa