_            _    _        _         _
      /\ \         /\ \ /\ \     /\_\      / /\
      \_\ \       /  \ \\ \ \   / / /     / /  \
      /\__ \     / /\ \ \\ \ \_/ / /     / / /\ \__
     / /_ \ \   / / /\ \ \\ \___/ /     / / /\ \___\
    / / /\ \ \ / / /  \ \_\\ \ \_/      \ \ \ \/___/
   / / /  \/_// / /   / / / \ \ \        \ \ \
  / / /      / / /   / / /   \ \ \   _    \ \ \
 / / /      / / /___/ / /     \ \ \ /_/\__/ / /
/_/ /      / / /____\/ /       \ \_\\ \/___/ /
\_\/       \/_________/         \/_/ \_____\/

Enter the query into the form above. You can look for specific version of a package by using @ symbol like this: gcc@10.

API method:

GET /api/packages?search=hello&page=1&limit=20

where search is your query, page is a page number and limit is a number of items on a single page. Pagination information (such as a number of pages and etc) is returned in response headers.

If you'd like to join our channel search send a patch to ~whereiseveryone/toys@lists.sr.ht adding your channel as an entry in channels.scm.

python-pysam-stubs 0.18.0.0.2
Channel: guix-arg
Location: guix-arg/packages/bioinformatics.scm (guix-arg packages bioinformatics)
Home page: https://github.com/marcelm/pysam-stubs/
Licenses:
Build system: pyproject
Synopsis:
#<unspecified>
impute5 1.2.0
Channel: guix-arg
Location: guix-arg/packages/bioinformatics.scm (guix-arg packages bioinformatics)
Home page: https://jmarchini.org/software/
Licenses:
Build system: copy
Synopsis: Genotype imputation method
Description:

IMPUTE 5 is a genotype imputation method that can scale to reference panels with millions of samples. This method continues to refine the observation made in the IMPUTE2 method, that accuracy is optimized via use of a custom subset of haplotypes when imputing each individual. It achieves fast, accurate, and memory-efficient imputation by selecting haplotypes using the Positional Burrows Wheeler Transform (PBWT). By using the PBWT data structure at genotyped markers, IMPUTE 5 identifies locally best matching haplotypes and long identical by state segments. The method then uses the selected haplotypes as conditioning states within the IMPUTE model.

shapeit5 5.1.1
Dependencies: boost@1.89.0 curl@8.6.0 htslib@1.21 libdeflate@1.19 openssl@3.0.8 xcftools@0.1.1 zlib@1.3.1
Propagated dependencies: xcftools@0.1.1
Channel: guix-arg
Location: guix-arg/packages/bioinformatics.scm (guix-arg packages bioinformatics)
Home page: https://odelaneau.github.io/
Licenses: Expat
Build system: gnu
Synopsis: Segmented HAPlotype Estimation and Imputation Tool
Description:

SHAPEIT5 is a fast and accurate method for estimation of haplotypes (aka phasing) for SNP array and sequencing data.

sapphire 1.0.0-97768d8
Channel: guix-arg
Location: guix-arg/packages/bioinformatics.scm (guix-arg packages bioinformatics)
Home page: https://github.com/rwk-unil/sapphire
Licenses: Expat
Build system: gnu
Synopsis: Smart and Accurate Polishing of Phased Haplotypes Integrating Read Enhancements (SAPPHIRE)
Description:

Smart and Accurate Polishing of Phased Haplotypes Integrating Read Enhancements (SAPPHIRE)

polegon 0.1.3
Channel: guix-arg
Location: guix-arg/packages/polegon.scm (guix-arg packages polegon)
Home page: https://github.com/YunDeng98/POLEGON
Licenses: Expat
Build system: gnu
Synopsis: Prior-Oblivious Length Estimation in Genealogies with Oriented Network
Description:

POLEGON stands for Prior-Oblivious Length Estimation in Genealogies with Oriented Network. POLEGON works with inferred Ancestral Recombination Graph (ARG) to re-calibrate the branch length, without the usage of any prior.

python-tsinfer 0.5.1
Propagated dependencies: python-attrs@25.3.0 python-daiquiri@3.0.1 python-humanize@4.14.0 python-lmdb@1.0.0 python-numba@0.61.0 python-numcodecs@0.13.1 python-numpy@1.26.4 python-psutil@7.0.0 python-six@1.17.0 python-sortedcontainers@2.4.0 python-tqdm@4.67.1 python-tskit@1.0.2 python-zarr@2.18.7
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://tskit.dev/tsinfer
Licenses: Expat
Build system: pyproject
Synopsis: Infer tree sequences from genetic variation data.
Description:

Infer tree sequences from genetic variation data.

python-tslmm 0.0.1
Propagated dependencies: python-numba@0.61.0 python-numpy@1.26.4 python-scipy@1.12.0 python-tskit@1.0.2
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/hanbin973/tslmm
Licenses: Expat
Build system: pyproject
Synopsis: Linear mixed models from ancestral recombination graphs.
Description:

Linear mixed models from ancestral recombination graphs.

python-arg-lmm 0.1.1
Propagated dependencies: python-arg-needle-lib@1.2.1
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/PalamaraLab/arg-lmm
Licenses:
Build system: pyproject
Synopsis: Efficient complex trait analyses from ARG
Description:

Efficient complex trait analyses from ARG.

python-twisstntern 0.1.0
Propagated dependencies: python-ete3@3.1.3 python-matplotlib@3.8.2 python-msprime@1.4.1b1 python-numpy@1.26.4 python-pandas@2.2.3 python-pyyaml@6.0.2 python-requests@2.32.5 python-scikit-learn@1.7.0 python-scipy@1.12.0 python-seaborn@0.13.2 python-tskit@1.0.2
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/HilaLifchitz/twisstntern_v2
Licenses:
Build system: pyproject
Synopsis:
Description:
python-tsdate 0.2.6
Propagated dependencies: python-appdirs@1.4.4 python-mpmath@1.3.0 python-numba@0.61.0 python-numpy@1.26.4 python-scipy@1.12.0 python-tqdm@4.67.1 python-tskit@1.0.2
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: http://pypi.python.org/pypi/tsdate
Licenses: Expat
Build system: pyproject
Synopsis: Infer node ages from a tree sequence topology.
Description:

Infer node ages from a tree sequence topology.

python-tspop 0.0.2
Propagated dependencies: python-matplotlib@3.8.2 python-numpy@1.26.4 python-pandas@2.2.3 python-tskit@1.0.2
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/gtsambos/tspop
Licenses: Expat
Build system: pyproject
Synopsis: Extracts population-based ancestry from simulated tree sequence datasets.
Description:

Extracts population-based ancestry from simulated tree sequence datasets.

python-twisst2 0.0.5
Propagated dependencies: python-cyvcf2@0.31.2 python-numpy@1.26.4 python-sticcs@0.0.5 python-tskit@1.0.2
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/simonhmartin/twisst2
Licenses: Expat
Build system: pyproject
Synopsis: Topology weighting from unphased genotypes of any ploidy.
Description:

Topology weighting from unphased genotypes of any ploidy.

python-sc2ts 1.0.2
Propagated dependencies: python-biotite@1.5.0 python-click@8.1.8 python-humanize@4.14.0 python-numba@0.61.0 python-pandas@2.2.3 python-pyfaidx@0.7.2.1 python-scipy@1.12.0 python-tomli@2.2.1 python-tqdm@4.67.1 python-tskit@1.0.2 python-tsinfer@0.5.1 python-tszip@0.3.1 python-zarr@2.18.7
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://tskit.dev/sc2ts
Licenses: GPL 3
Build system: pyproject
Synopsis: Infer ARGs for SARS-Cov2 in tskit format
Description:

Infer ARGs for SARS-Cov2 in tskit format.

python-sparg 2.0.0
Propagated dependencies: python-ipywidgets@8.1.2 python-matplotlib@3.8.2 python-numpy@1.26.4 python-pandas@2.2.3 python-scipy@1.12.0 python-sympy@1.13.3 python-tqdm@4.67.1 python-tskit@1.0.2
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/osmond-lab/sparg
Licenses: GPL 3
Build system: pyproject
Synopsis: Spatial inference from ancestral recombination graphs
Description:

Spatial inference from ancestral recombination graphs

python-tsbrowse 0.1.1
Propagated dependencies: python-click@8.1.8 python-daiquiri@3.0.1 python-datashader@0.18.1 python-hvplot@0.12.1 python-matplotlib@3.8.2 python-panel@1.6.1 python-tskit@1.0.2 python-tszip@0.3.1
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://tskit.dev/pinned/
Licenses: Expat
Build system: pyproject
Synopsis: Webapp to view and visualise the information structure in tskit ARGs
Description:

Webapp to view and visualise the information structure in tskit ARGs

python-tscompare 0.2.1
Propagated dependencies: python-tskit@1.0.2 python-scipy@1.12.0
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://tskit.dev/tscompare
Licenses: Expat
Build system: pyproject
Synopsis: Utilities for comparing tree sequences
Description:

Utilities for comparing tree sequences

python-espalier 0.1.2
Propagated dependencies: python-biopython@1.85 python-click@8.1.8 python-dendropy@4.5.1 python-numpy@1.26.4 python-pandas@2.2.3 python-scipy@1.12.0 python-tskit@1.0.2
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/davidrasm/Espalier
Licenses: ASL 2.0
Build system: pyproject
Synopsis: Espalier is a Python package for working with discordant phylogenetic trees using maximum agreement forests
Description:

Espalier is a Python package for working with discordant phylogenetic trees using maximum agreement forests.

python-gaiapy 0.1.2
Propagated dependencies: python-numpy@1.26.4 python-scipy@1.12.0 python-tskit@1.0.2
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page:
Licenses: Expat
Build system: pyproject
Synopsis: Geographic Ancestry Inference Algorithm - Python implementation (continuous space parsimony methods)
Description:

Geographic Ancestry Inference Algorithm - Python implementation (continuous space parsimony methods).

python-sticcs 0.0.5
Propagated dependencies: python-cyvcf2@0.31.2 python-numpy@1.26.4 python-tskit@1.0.2
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/simonhmartin/sticcs
Licenses: Expat
Build system: pyproject
Synopsis: Model-free inference of tree sequences from unphased genotypes.
Description:

Model-free inference of tree sequences from unphased genotypes.

python-tskit-arg-visualizer 0.1.2
Propagated dependencies: python-ipython@8.37.0 python-msprime@1.4.1b1 python-pandas@2.2.3 python-tqdm@4.67.1
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/kitchensjn/tskit_arg_visualizer
Licenses: Expat
Build system: pyproject
Synopsis: Interactive visualization method for ancestral recombination graphs
Description:

Interactive visualization method for ancestral recombination graphs.

python-tstrait 0.1.2
Propagated dependencies: python-numba@0.61.0 python-numpy@1.26.4 python-pandas@2.2.3 python-tskit@1.0.2
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://tskit.dev/tstrait/
Licenses: Expat
Build system: pyproject
Synopsis: Quantitative trait simulation of tree sequence data
Description:

Quantitative trait simulation of tree sequence data

python-argscape 0.7.2
Propagated dependencies: python-apscheduler@3.11.1 python-cryptography@44.0.0 python-fastapi@0.115.6 python-fastgaia@0.1.2 python-fiona-1.9.5@1.9.5 python-gaiapy@0.1.2 python-geopandas@1.1.1 python-matplotlib@3.8.2 python-msprime@1.4.1b1 python-numpy@1.26.4 python-pandas@2.2.3 python-pydantic@1.10.19 python-pyproj@3.6.1 python-dotenv@1.1.1 python-multipart@0.0.20 python-scikit-learn@1.7.0 python-scipy@1.12.0 python-shapely@2.1.1 python-sympy@1.13.3 python-tqdm@4.67.1 python-tsdate@0.2.6 python-tskit@1.0.2 python-tszip@0.3.1 python-uvicorn@0.34.0
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/chris-a-talbot/argscape
Licenses:
Build system: pyproject
Synopsis: ARGscape: interactive ARG visualization and analysis
Description:

ARGscape: interactive ARG visualization and analysis.

python-stdpopsim 0.3.0
Propagated dependencies: python-appdirs@1.4.4 python-attrs@25.3.0 python-humanize@4.14.0 python-msprime@1.4.1b1 python-numpy@1.26.4 python-pyslim@1.1b1
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://github.com/popsim-consortium/stdpopsim
Licenses: GPL 3
Build system: pyproject
Synopsis: A library of population genetic simulation models
Description:

A Python library of population genetic simulation models

python-tskit 1.0.2
Propagated dependencies: python-jsonschema@4.23.0 python-numpy@1.26.4
Channel: guix-arg
Location: guix-arg/packages/python-arg.scm (guix-arg packages python-arg)
Home page: https://tskit.dev/tskit
Licenses: Expat
Build system: pyproject
Synopsis: The tree sequence toolkit.
Description:

The tree sequence toolkit.

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