Btrim: A fast, lightweight adapter and quality trimming program for next-generation sequencing technologies
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arXiv
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| Format: | Preprint |
| Publié: |
2014
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| _version_ | 1866911886308540416 |
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| author | Kong, Yong |
| author_facet | Kong, Yong |
| contents | Btrim is a fast and lightweight software to trim adapters and low quality regions in reads from ultra high-throughput next-generation sequencing machines. It also can reliably identify barcodes and assign the reads to the original samples. Based on a modified Myers's bit-vector dynamic programming algorithm, Btrim can handle indels in adapters and barcodes. It removes low quality regions and trims off adapters at both or either end of the reads. A typical trimming of 30M reads with two sets of adapter pairs can be done in about a minute with a small memory footprint. Btrim is a versatile stand-alone tool that can be used as the first step in virtually all next-generation sequence analysis pipelines. The program is available at \url{http://graphics.med.yale.edu/trim/}. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_1410_6455 |
| institution | arXiv |
| publishDate | 2014 |
| record_format | arxiv |
| spellingShingle | Btrim: A fast, lightweight adapter and quality trimming program for next-generation sequencing technologies Kong, Yong Genomics Computational Engineering, Finance, and Science Data Structures and Algorithms Btrim is a fast and lightweight software to trim adapters and low quality regions in reads from ultra high-throughput next-generation sequencing machines. It also can reliably identify barcodes and assign the reads to the original samples. Based on a modified Myers's bit-vector dynamic programming algorithm, Btrim can handle indels in adapters and barcodes. It removes low quality regions and trims off adapters at both or either end of the reads. A typical trimming of 30M reads with two sets of adapter pairs can be done in about a minute with a small memory footprint. Btrim is a versatile stand-alone tool that can be used as the first step in virtually all next-generation sequence analysis pipelines. The program is available at \url{http://graphics.med.yale.edu/trim/}. |
| title | Btrim: A fast, lightweight adapter and quality trimming program for next-generation sequencing technologies |
| topic | Genomics Computational Engineering, Finance, and Science Data Structures and Algorithms |
| url | https://arxiv.org/abs/1410.6455 |