AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and elucidates the architecture of the amplicon. In the current version, AA takes as input next generation sequencing reads (paired-end Illumina reads) mapped to the hg19/GRCh37 reference sequence and one or more regions of interest. Please "watch" this repository for improvements in runtime, accuracy and annotations for GRCh38 human reference genome coming up soon.
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Whether to filter low-quality reads of BAM files #116
Hi,
After performing bwa mem to align reads to the reference genome, I am wondering whether I should filter the low-quality mapped reads (e.g., samtools view -q 30)?
Hi, After performing bwa mem to align reads to the reference genome, I am wondering whether I should filter the low-quality mapped reads (e.g., samtools view -q 30)?