DeepM Aligner, A new open source Aligner for NGS data Mert Ahmet - - PowerPoint PPT Presentation

Mert Ahmet Kuşkucu, Kenan Midilli İstanbul University Cerrahpasa School of Medicine Department of Medical Microbiology Department of Virology

DeepM Aligner, A new open source Aligner for NGS data

Data An Analysis i is The Bott ttle Ne Neck of

• f

NG NGS

Deep M Aligner;

• DeepM Aligner is a new open source software that

uses Bowtie2 and Burrows-Wheeler-Aligner (BWA) for NGS data interpretation.

• We developed the software for analysis of HIV drug

resistance.

The Algorithm:

Indexing BT2 And DMA script

Sorting of Data Samtools and DMA script

Indexing BWA and DMA script Aligment of NGS Data (BT2) and DMA script Aligment (BWA) and DMA script Variant Calling; VarScan and DMA script Generation of Covarage Graph GNU Plot and DMA script Generation of 1%, 10% and 20 % consensus files in fasta format DMA script Report Generation; Stanford DB, Geno2Pheno etc.

Linux OS, Perl

Bowtie2, BWA and DeepChek In < 20 % variant files have 100 % agreement Bowtie2 and BWA in <10% variant files have 100 % agreement In <1% variant files have minor differences; p distance mean is 0,0014, min 0,00157, max 0,00315)

Thanks for your kind attentions…

DeepM Aligner kuskucum@gmail.com