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Posts by Collection
portfolio
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publications
Megadepth: efficient coverage quantification for BigWigs and BAMs
Published in Bioinformatics, 2021
This paper presented a new efficient tool for quantifying coverage for BigWigs and BAMS called megadepth. This tool was developed by Christopher Wilks. I assisted in the benchmarking of the tool for the paper.
Recommended citation: Wilks, C., Ahmed, O., Baker, D. N., Zhang, D., Collado-Torres, L., & Langmead, B. (2021). Megadepth: efficient coverage quantification for BigWigs and BAMs. Bioinformatics (Oxford, England), btab152. https://doi.org/10.1093/bioinformatics/btab152
Pan-genomic Matching Statistics for Targeted Nanopore Sequencing
Published in iScience, 2021
This paper introduced a tool called SPUMONI which performs rapid, binary classification of reads with respect to a reference database. The tool is aimed toward the application of adaptive sequencing with Nanopore sequencers.
Recommended citation: Ahmed, O., Rossi, M., Kovaka, S., Schatz, M. C., Gagie, T., Boucher, C., & Langmead, B. (2021). Pan-genomic Matching Statistics for Targeted Nanopore Sequencing. iScience, 102696.
talks
Talk 1 on Relevant Topic in Your Field
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Conference Proceeding talk 3 on Relevant Topic in Your Field
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teaching
Teaching experience 1
Undergraduate course, University 1, Department, 2014
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Teaching experience 2
Workshop, University 1, Department, 2015
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