Fast alignment and preprocessing of chromatin profiles with Chromap

As sequencing depth of chromatin studies continually grows deeper for sensitive profiling of regulatory elements or chromatin spatial structures, aligning and preprocessing of these sequencing data have become the bottleneck for analysis. Here we present Chromap, an ultrafast method for aligning and...

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Detalles Bibliográficos
Autores principales: Zhang, Haowen, Song, Li, Wang, Xiaotao, Cheng, Haoyu, Wang, Chenfei, Meyer, Clifford A., Liu, Tao, Tang, Ming, Aluru, Srinivas, Yue, Feng, Liu, X. Shirley, Li, Heng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2021
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8589834/
https://www.ncbi.nlm.nih.gov/pubmed/34772935
http://dx.doi.org/10.1038/s41467-021-26865-w
Descripción
Sumario:As sequencing depth of chromatin studies continually grows deeper for sensitive profiling of regulatory elements or chromatin spatial structures, aligning and preprocessing of these sequencing data have become the bottleneck for analysis. Here we present Chromap, an ultrafast method for aligning and preprocessing high throughput chromatin profiles. Chromap is comparable to BWA-MEM and Bowtie2 in alignment accuracy and is over 10 times faster than traditional workflows on bulk ChIP-seq/Hi-C profiles and than 10x Genomics’ CellRanger v2.0.0 pipeline on single-cell ATAC-seq profiles.

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