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1. sam2pairwise sam2pairwise Public

   sam2pairwise takes a SAM file and uses the CIGAR and MD tag to reconstruct the pairwise alignment of each read.

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2. meeting_notes meeting_notes Public

   Notes from various scientific meetings and presentations I've attended

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3. ampliconDIVider ampliconDIVider Public

   ampliconDIVider identifies deletion and insertion variants (DIVs) in DNA amplicons.

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4. crisprTrack crisprTrack Public

   crisprTrack identifies putative 20-mer CRISPR/Cas9 targets in a given genome, and outputs a BED file that can be used for visualization.

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5. GeIST GeIST Public

   GeIST (Genomic Integration Site Tracker) identifies MLV, AAV, Tol2, or Ds integration sites, based on the assay described in http://dx.doi.org/10.1101/gr.151464.112 and http://dx.doi.org/10.1093/na…

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6. bowtie bowtie Public

   Forked from BenLangmead/bowtie

   An ultrafast memory-efficient short read aligner

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