对于基因组组装而言,kmer count是最基础的分析内容之一,传统的kmer count工具在kmer长度小于32时,有着较好的性能,但是对于较大长度的kmer, 内存消耗和运行速度都差强人意。随着测序读长的不断增加,一款能够支持较大kmer的计数,而且性能良好的工具就显得非常的有必要。 Gerbil就是这样的一款工具,除了在算法上进行优化...
Kmercount 0.0.2 Usage: kmercount [OPTIONS] KMERFILENAME [SEQUENCEFILENAME] General options: -h, --help display this help and exit -k, --kmer-length INTEGER kmer length [1-32] (31) -t, --threads INTEGER number of threads to use [1-1] (1) -v, --version display version information...
Code examples of fast and simple k-mer counters for tutorial purposes - kmer-cnt/yak-count.c at master · lh3/kmer-cnt
K-mer countingKristian Hovde LilandLars Snipen
对于基因组组装而言,kmer count是最基础的分析内容之一,传统的kmer count工具在kmer长度小于32时,有着较好的性能,但是对于较大长度的kmer, 内存消耗和运行速度都差强人意。随着测序读长的不断增加,一款能够支持较大kmer的计数,而且性能良好的工具就显得非常的有必要。
对于基因组组装而言,kmer count是最基础的分析内容之一,传统的kmer count工具在kmer长度小于32时,有着较好的性能,但是对于较大长度的kmer, 内存消耗和运行速度都差强人意。随着测序读长的不断增加,一款能够支持较大kmer的计数,而且性能良好的工具就显得非常的有必要。
kcountis a single fast kmer counting tool. It generates a kmer histogram and a database. It can merge multiple kmer databases. It is based on parallel hashing. Installation Either download one of the releases orgit clone https://github.com/vgl-hub/kcount.git --recursiveandmake -jin thek...
simple utility to count k-mers in fasta file. Contribute to mkudla/kmer_search development by creating an account on GitHub.
1. Function introduction: kmerfreq count K-mer (with size K) frequency from the input sequence data, typically sequencing reads data, and reference genome data is also applicable. The forward and reverse strand of a k-mer are taken as the same k-mer, and only the kmer strand with smaller...