Package: seqan-needle (1.0.2+ds-2)

[ Source: seqan-needle  ]

pre-filter for the counting of very large collections of nucleotide sequences

Needle is a tool for semi-quantitative analysis of very large collections of nucleotide sequences.

Needle stores its data in multiple interleaved Bloom filter, a fast and space efficient probabilistic data structure and uses a windowing scheme (also called minimisers) to reduce the amount of data to store. How many interleaved Bloom filter are used is defined by the user. Each interleaved Bloom filter has a so called expression threshold and stores minimisers with an occurrence greater than or equal to its own expression threshold and smaller than the next biggest expression threshold (if there is no bigger expression threshold, all greater than or equal to the threshold are stored). These expression thresholds are then used during the query (called estimate) to approximate the expression values of given transcripts.

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Download seqan-needle

Download for all available architectures

Architecture	Package Size	Installed Size	Files
alpha (unofficial port)	305.5 kB	1,253.0 kB	[list of files]
amd64	344.6 kB	1,128.0 kB	[list of files]
arm64	296.0 kB	1,056.0 kB	[list of files]
ia64 (unofficial port)	407.7 kB	2,087.0 kB	[list of files]
mips64el	309.8 kB	1,427.0 kB	[list of files]
ppc64el	344.9 kB	1,312.0 kB	[list of files]
riscv64	338.1 kB	832.0 kB	[list of files]