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[ 源代码: reapr  ]

软件包:reapr(1.0.18+dfsg-4)

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universal tool for genome assembly evaluation

REAPR is a tool that evaluates the accuracy of a genome assembly using mapped paired end reads, without the use of a reference genome for comparison. It can be used in any stage of an assembly pipeline to automatically break incorrect scaffolds and flag other errors in an assembly for manual inspection. It reports mis-assemblies and other warnings, and produces a new broken assembly based on the error calls.

The software requires as input an assembly in FASTA format and paired reads mapped to the assembly in a BAM file. Mapping information such as the fragment coverage and insert size distribution is analysed to locate mis-assemblies. REAPR works best using mapped read pairs from a large insert library (at least 1000bp). Additionally, if a short insert Illumina library is also available, REAPR can combine this with the large insert library in order to score each base of the assembly.

标签: 生物学: 核酸, 领域: 生物学, field::biology:bioinformatics, implemented-in::c++, 用户接口: 命令行, 角色: role::program, works-with::biological-sequence

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下载可用于所有硬件架构的
硬件架构 软件包大小 安装后大小 文件
amd64 198.5 kB1,061.0 kB [文件列表]
arm64 180.3 kB925.0 kB [文件列表]
armel 166.3 kB803.0 kB [文件列表]
armhf 167.6 kB639.0 kB [文件列表]
mips64el 189.7 kB1,134.0 kB [文件列表]
mipsel 188.7 kB1,065.0 kB [文件列表]
ppc64el 200.2 kB1,605.0 kB [文件列表]