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Fast alignment and preprocessing of chromatin profiles with Chromap
Preprint
Haowen Zhang ,
Li Song ,
Xiaotao Wang ,
Haoyu Cheng ,
Chenfei Wang ,
Clifford Meyer ,
Tao Liu ,
Ming Tang ,
Srinivas Aluru ,
Feng Yue ,
X. Shirley Liu ,
Heng Li
June 18 2021
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Abstract
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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