1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
|
Source: sourmash
Section: python
Priority: optional
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Michael R. Crusoe <crusoe@debian.org>,
Debian Rust Maintainers <pkg-rust-maintainers@alioth-lists.debian.net>
Build-Depends: debhelper-compat (= 13),
architecture-is-64-bit,
architecture-is-little-endian,
cargo,
dh-cargo,
dh-sequence-python3,
dh-sequence-sphinxdoc <!nodoc>,
python3-nbsphinx <!nodoc>,
python3-ipython <!nodoc>,
python3-myst-parser <!nodoc>,
python3-sphinx-design <!nodoc>,
pandoc <!nodoc>,
librust-az-dev,
librust-byteorder-dev,
librust-counter-dev,
librust-camino-dev,
librust-cfg-if-dev,
librust-csv-dev,
librust-enum-dispatch-dev,
librust-fixedbitset-dev,
librust-getset-dev,
librust-histogram-dev,
librust-itertools-dev,
librust-log-dev,
librust-md5-dev,
librust-memmap2-dev,
librust-murmurhash3-dev,
librust-needletail-dev,
librust-niffler-dev,
librust-nohash-hasher-dev,
librust-num-iter-dev,
librust-once-cell-dev,
librust-ouroboros-dev,
librust-piz-dev,
librust-primal-check-dev,
librust-rayon-dev,
librust-rkyv-dev,
librust-roaring-dev,
librust-roots-dev,
librust-serde+serde-derive-dev,
librust-serde-json-dev,
librust-statrs-dev,
librust-streaming-stats-dev,
librust-twox-hash-dev,
librust-typed-builder-dev,
librust-vec-collections-dev,
librust-chrono-dev,
librust-rocksdb-dev,
pybuild-plugin-pyproject,
python3-maturin,
python3-bitstring,
python3-cachetools,
python3-cffi,
python3-all-dev,
python3-ijson,
python3-matplotlib,
python3-numpy,
python3-pytest <!nocheck>,
python3-pytest-xdist <!nocheck>,
python3-scipy,
python3-sphinx,
python3-screed,
python3-setuptools,
python3-setuptools-scm,
python3-yaml,
python3-hypothesis <!nocheck>,
python3-deprecation <!nocheck>
Standards-Version: 4.7.0
Vcs-Browser: https://salsa.debian.org/med-team/sourmash
Vcs-Git: https://salsa.debian.org/med-team/sourmash.git
Homepage: https://github.com/dib-lab/sourmash
Rules-Requires-Root: no
Testsuite: autopkgtest-pkg-pybuild
Package: sourmash
Architecture: any
Depends: ${misc:Depends}, ${python3:Depends}, ${shlibs:Depends}
Built-Using: ${cargo:Built-Using}
X-Cargo-Built-Using: ${cargo:X-Cargo-Built-Using}
Static-Built-Using: ${cargo:Static-Built-Using}
Description: tools for comparing DNA sequences with MinHash sketches
Compute MinHash signatures for nucleotide (DNA/RNA) and protein sequences.
.
MinHash sketches provide a lightweight way to store “signatures” of large DNA
or RNA sequence collections, and then compare or search them using a Jaccard
index. MinHash sketches can be used to identify samples, find similar samples,
identify data sets with shared sequences, and build phylogenetic trees
(Ondov et al. 2015).
.
sourmash provides a command line script, a Python library, and a CPython
module for MinHash sketches.
.
These tools provide functionality previously handled by the 'khmer' package.
|
