NGMLR 0.2.7
- Amanda Cooksey (Unlicensed)
Owned by Amanda Cooksey (Unlicensed)
Oct 12, 2020
1 min read
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NGMLR 0.2.7
This app runs NGMLR 0.2.7. NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations.
Quick Start
- To use NGMLR 0.2.7, provide long-read data in FASTA/Q format along with a reference genome in FASTA format
- Resources: https://github.com/philres/ngmlr
Test Data
Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> osg-ngmlr
Input File(s)
- R9_Ecoli_K12_MG1655_lambda_MinKNOW_0.51.1.62.fa
- Escherichia_coli_str._K-12_substr._MG1655_complete_genome.fasta
Parameters Used in App
When the app is run in the Discovery Environment, use the following parameters with the above input file(s) to get the output provided in the next section below.
- Provide output file prefix: ngmlr_out
Leave all other parameters as default.
Output File(s)
- ngmlr_out.sam