From cf1787606f732a009b9be087ed83613eb1812be6 Mon Sep 17 00:00:00 2001 From: nw20 Date: Mon, 12 Feb 2024 17:24:21 +0000 Subject: [PATCH] deploy: 079463bc6aafdcdbb7c74e890c9481a837af6ff2 --- _sources/pv4/Data_access.ipynb | 2 +- _sources/pv4/api.md | 2 +- _static/__pycache__/__init__.cpython-38.pyc | Bin 194 -> 194 bytes genindex.html | 8 ++++++-- landing-page.html | 12 ++++++++---- pf7/Data_access.html | 8 ++++++-- pf7/api.html | 10 +++++++--- pf7/evolution-malaria-control.html | 8 ++++++-- .../chloroquine-resistance-map.html | 8 ++++++-- .../csp-cterm-analysis.html | 8 ++++++-- .../drug-resistance-summary.html | 8 ++++++-- .../summarise_hrp2_hrp3_deletions.html | 8 ++++++-- .../visualise_hrp2_hrp3_deletions.html | 8 ++++++-- pf7/popgen.html | 8 ++++++-- pf7/popgen/PCoA.html | 8 ++++++-- .../geographic-genetic-differentiation.html | 8 ++++++-- pf7/popgen/neighbour-joining-tree-swga.html | 8 ++++++-- pf7/popgen/proportion-eba175.html | 8 ++++++-- pf7/summarise-data.html | 8 ++++++-- .../barplot-samples-by-country.html | 8 ++++++-- pf7/summarise_data/global-sample-map.html | 8 ++++++-- .../sample-collection-over-time.html | 8 ++++++-- pf7/summarise_data/sample-summary-table.html | 8 ++++++-- pf7/summarise_data/variant-summary-table.html | 8 ++++++-- pf7/useful-how-tos.html | 8 ++++++-- pf7/useful_how_tos/igv-notebook.html | 8 ++++++-- pv4/Data_access.html | 12 ++++++++---- pv4/api.html | 12 ++++++++---- search.html | 8 ++++++-- searchindex.js | 2 +- 30 files changed, 166 insertions(+), 62 deletions(-) diff --git a/_sources/pv4/Data_access.ipynb b/_sources/pv4/Data_access.ipynb index 406de14..c7ad183 100644 --- a/_sources/pv4/Data_access.ipynb +++ b/_sources/pv4/Data_access.ipynb @@ -7,7 +7,7 @@ "id": "0238fdea" }, "source": [ - "# Pv4 Data Access\n", + "# **Pv4 Data Access**\n", "\n", "This page provides information about how to access data from [Plasmodium vivax version 4 (Pv4)](https://www.malariagen.net/resource/30) project via Google Cloud. This includes sample metadata and single nucleotide polymorphism (SNP) calls for 1,895 samples from 27 countries. This release spans [11 partner studies and 3 external studies](https://www.malariagen.net/sites/default/files/Pv4%20contributing%20partner%20studies.pdf).\n", "\n", diff --git a/_sources/pv4/api.md b/_sources/pv4/api.md index ce74e12..c535bc4 100644 --- a/_sources/pv4/api.md +++ b/_sources/pv4/api.md @@ -1,4 +1,4 @@ -# Pv4 API +# **Pv4 API** This page provides documentation for functions in the [malariagen_data](https://github.com/malariagen/malariagen-data-python) Python package for accessing _Plasmodium falciparum_ data. diff --git a/_static/__pycache__/__init__.cpython-38.pyc b/_static/__pycache__/__init__.cpython-38.pyc index 849e6f4761c1b1d8218003c6e91b7310cd734c06..8a0850cd2d57130c69dee04eef8d6e5f45f4e175 100644 GIT binary patch delta 18 YcmX@ac!-fJl$V!_0SNR%CUWfn03{p)-~a#s delta 18 YcmX@ac!-fJl$V!_0SMxQCUWfn044+k4gdfE diff --git a/genindex.html b/genindex.html index 66bf3fb..8a3faec 100644 --- a/genindex.html +++ b/genindex.html @@ -271,12 +271,16 @@

MalariaGEN parasite data user guide

diff --git a/landing-page.html b/landing-page.html index 0d21e41..c29d71a 100644 --- a/landing-page.html +++ b/landing-page.html @@ -279,12 +279,16 @@

MalariaGEN parasite data user guide

@@ -427,8 +431,8 @@

MalariaGEN parasite data user guide

Pv4
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MalariaGEN parasite data user guide

diff --git a/pf7/api.html b/pf7/api.html index df971d9..a1b0313 100644 --- a/pf7/api.html +++ b/pf7/api.html @@ -280,12 +280,16 @@

MalariaGEN parasite data user guide

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variant_calls()

next

-

Pv4 Data Access

+

Pv4 Data Access

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MalariaGEN parasite data user guide

diff --git a/pf7/evolution_malaria_control/chloroquine-resistance-map.html b/pf7/evolution_malaria_control/chloroquine-resistance-map.html index 79bce67..67b1b0b 100644 --- a/pf7/evolution_malaria_control/chloroquine-resistance-map.html +++ b/pf7/evolution_malaria_control/chloroquine-resistance-map.html @@ -280,12 +280,16 @@

MalariaGEN parasite data user guide

diff --git a/pf7/evolution_malaria_control/csp-cterm-analysis.html b/pf7/evolution_malaria_control/csp-cterm-analysis.html index fdc74b1..65fe5cd 100644 --- a/pf7/evolution_malaria_control/csp-cterm-analysis.html +++ b/pf7/evolution_malaria_control/csp-cterm-analysis.html @@ -280,12 +280,16 @@

MalariaGEN parasite data user guide

diff --git a/pf7/evolution_malaria_control/drug-resistance-summary.html b/pf7/evolution_malaria_control/drug-resistance-summary.html index c08afd6..1f67b90 100644 --- a/pf7/evolution_malaria_control/drug-resistance-summary.html +++ b/pf7/evolution_malaria_control/drug-resistance-summary.html @@ -280,12 +280,16 @@

MalariaGEN parasite data user guide

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MalariaGEN parasite data user guide

diff --git a/pf7/evolution_malaria_control/visualise_hrp2_hrp3_deletions.html b/pf7/evolution_malaria_control/visualise_hrp2_hrp3_deletions.html index 8c59ac6..fc48a95 100644 --- a/pf7/evolution_malaria_control/visualise_hrp2_hrp3_deletions.html +++ b/pf7/evolution_malaria_control/visualise_hrp2_hrp3_deletions.html @@ -280,12 +280,16 @@

MalariaGEN parasite data user guide

diff --git a/pf7/popgen.html b/pf7/popgen.html index 77d0408..715b72a 100644 --- a/pf7/popgen.html +++ b/pf7/popgen.html @@ -280,12 +280,16 @@

MalariaGEN parasite data user guide

diff --git a/pf7/popgen/PCoA.html b/pf7/popgen/PCoA.html index 6ad3f92..dc86997 100644 --- a/pf7/popgen/PCoA.html +++ b/pf7/popgen/PCoA.html @@ -280,12 +280,16 @@

MalariaGEN parasite data user guide

diff --git a/pf7/popgen/geographic-genetic-differentiation.html b/pf7/popgen/geographic-genetic-differentiation.html index bc8f70e..9dc3b69 100644 --- a/pf7/popgen/geographic-genetic-differentiation.html +++ b/pf7/popgen/geographic-genetic-differentiation.html @@ -282,12 +282,16 @@

MalariaGEN parasite data user guide

diff --git a/pf7/popgen/neighbour-joining-tree-swga.html b/pf7/popgen/neighbour-joining-tree-swga.html index 3e0eec5..0ab97e6 100644 --- a/pf7/popgen/neighbour-joining-tree-swga.html +++ b/pf7/popgen/neighbour-joining-tree-swga.html @@ -280,12 +280,16 @@

MalariaGEN parasite data user guide

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MalariaGEN parasite data user guide

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MalariaGEN parasite data user guide

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MalariaGEN parasite data user guide

diff --git a/pf7/summarise_data/global-sample-map.html b/pf7/summarise_data/global-sample-map.html index f4ae1be..e219644 100644 --- a/pf7/summarise_data/global-sample-map.html +++ b/pf7/summarise_data/global-sample-map.html @@ -280,12 +280,16 @@

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MalariaGEN parasite data user guide

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MalariaGEN parasite data user guide

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MalariaGEN parasite data user guide

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MalariaGEN parasite data user guide

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MalariaGEN parasite data user guide

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MalariaGEN parasite data user guide

@@ -487,7 +491,7 @@

Contents

-

Pv4 Data Access

+

Pv4 Data Access

This page provides information about how to access data from Plasmodium vivax version 4 (Pv4) project via Google Cloud. This includes sample metadata and single nucleotide polymorphism (SNP) calls for 1,895 samples from 27 countries. This release spans 11 partner studies and 3 external studies.

This notebook illustrates how to read data directly from the cloud, without having to first download any data locally. This notebook can be run from any computer, but will work best when run from a compute node within Google Cloud, because it will be physically closer to the data and so data transfer is faster. For example, this notebook can be run via MyBinder or Google Colab which are free interactive computing service running in the cloud.

To launch this notebook in the cloud and run it for yourself, click the launch icon () at the top of the page and select one of the cloud computing services available.

@@ -9097,7 +9101,7 @@

Genome Reference

next

-

Pv4 API

+

Pv4 API

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MalariaGEN parasite data user guide

@@ -454,7 +458,7 @@

Contents

-

Pv4 API

+

Pv4 API

This page provides documentation for functions in the malariagen_data Python package for accessing Plasmodium falciparum data.

Pv4()

@@ -619,7 +623,7 @@

variant_calls()

previous

-

Pv4 Data Access

+

Pv4 Data Access

diff --git a/search.html b/search.html index f27a58c..bbccc52 100644 --- a/search.html +++ b/search.html @@ -277,12 +277,16 @@

MalariaGEN parasite data user guide

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