NGMLR 0.2.7

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

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

Tool Source for App