From 6752a0d8a7a2af9097a2e325c9f0b52228768f86 Mon Sep 17 00:00:00 2001 From: Helena Rasche Date: Mon, 15 May 2023 17:33:59 +0200 Subject: [PATCH] fix two broken links --- .../tutorials/x-array-map-plot/tutorial.md | 290 +++++++++--------- .../tutorials/sars-cov-2/tutorial.md | 4 +- 2 files changed, 147 insertions(+), 147 deletions(-) diff --git a/topics/ecology/tutorials/x-array-map-plot/tutorial.md b/topics/ecology/tutorials/x-array-map-plot/tutorial.md index 1be9b87b53d42..607de204cc665 100644 --- a/topics/ecology/tutorials/x-array-map-plot/tutorial.md +++ b/topics/ecology/tutorials/x-array-map-plot/tutorial.md @@ -522,295 +522,295 @@ Although we are not using `splithour` here, you can find below the syntax for fu > **ACCENT** > ![Accent](../../images/x-array-map-plot/colormaps/Accent.png) > **BLUES** -> ![Blues]( ../../images/x-array-map-plot/colormaps/Blues.png ) +> ![Blues](../../images/x-array-map-plot/colormaps/Blues.png) > **BrBg** -> ![BrBg]( ../../images/x-array-map-plot/colormaps/BrBG.png ) +> ![BrBg](../../images/x-array-map-plot/colormaps/BrBG.png) > **BuGn** -> ![BuGn]( ../../images/x-array-map-plot/colormaps/BuGn.png ) +> ![BuGn](../../images/x-array-map-plot/colormaps/BuGn.png) > **BuPu** -> ![BuPu](../../images/x-array-map-plot/colormaps/BuPu.png ) +> ![BuPu](../../images/x-array-map-plot/colormaps/BuPu.png) > **CMRmap** -> ![CMRmap]( ../../images/x-array-map-plot/colormaps/CMRmap.png ) +> ![CMRmap](../../images/x-array-map-plot/colormaps/CMRmap.png) > **Dark2** -> ![Dark2](../../images/x-array-map-plot/colormaps/Dark2.png ) +> ![Dark2](../../images/x-array-map-plot/colormaps/Dark2.png) > **Acton** -> ![Acton](../../images/x-array-map-plot/colormaps/acton.png ) +> ![Acton](../../images/x-array-map-plot/colormaps/acton.png) > **Acton_r** -> ![Acton_r]( ../../images/x-array-map-plot/colormaps/acton_r.png ) +> ![Acton_r](../../images/x-array-map-plot/colormaps/acton_r.png) > **Afmhot** -> ![Afmhot]( ../../images/x-array-map-plot/colormaps/afmhot.png ) +> ![Afmhot](../../images/x-array-map-plot/colormaps/afmhot.png) > **Autumn** -> ![Autumn]( ../../images/x-array-map-plot/colormaps/autumn.png ) +> ![Autumn](../../images/x-array-map-plot/colormaps/autumn.png) > **Bam** -> ![BamO]( ../../images/x-array-map-plot/colormaps/bam.png ) +> ![BamO](../../images/x-array-map-plot/colormaps/bam.png) > **BamO** -> ![BamO]( ../../images/x-array-map-plot/colormaps/bam0.png ) +> ![BamO](../../images/x-array-map-plot/colormaps/bam0.png) > **BamO_r** -> ![bamO_r]( ../../images/x-array-map-plot/colormaps/bamO_r.png ) +> ![bamO_r](../../images/x-array-map-plot/colormaps/bamO_r.png) > **Bamako** -> ![Accent]( ../../images/x-array-map-plot/colormaps/bamako.png ) +> ![Accent](../../images/x-array-map-plot/colormaps/bamako.png) > **Bamako_r** -> ![bamako_r]( ../../images/x-array-map-plot/colormaps/bamako_r.png ) +> ![bamako_r](../../images/x-array-map-plot/colormaps/bamako_r.png) > **Batlow** -> ![Batlow]( ../../images/x-array-map-plot/colormaps/batlow.png ) +> ![Batlow](../../images/x-array-map-plot/colormaps/batlow.png) > **BatlowK** -> ![BatlowK]( ../../images/x-array-map-plot/colormaps/batlowK.png ) +> ![BatlowK](../../images/x-array-map-plot/colormaps/batlowK.png) > **BatlowK_r** -> ![BatlowK_r]( ../../images/x-array-map-plot/colormaps/batlowK_r.png ) +> ![BatlowK_r](../../images/x-array-map-plot/colormaps/batlowK_r.png) > **BatlowW** -> ![batlowW]( ../../images/x-array-map-plot/colormaps/batlowW.png ) +> ![batlowW](../../images/x-array-map-plot/colormaps/batlowW.png) > **BatlowW_r** -> ![batlowW_r]( ../../images/x-array-map-plot/colormaps/batlowW_r.png ) +> ![batlowW_r](../../images/x-array-map-plot/colormaps/batlowW_r.png) > **Batlow_r** -> ![Batlow_r]( ../../images/x-array-map-plot/colormaps/batlow_r.png ) +> ![Batlow_r](../../images/x-array-map-plot/colormaps/batlow_r.png) > **Berlin** -> ![Berlin]( ../../images/x-array-map-plot/colormaps/berlin.png ) +> ![Berlin](../../images/x-array-map-plot/colormaps/berlin.png) > **berlin_r** -> ![Berlin_r]( ../../images/x-array-map-plot/colormaps/berlin_r.png ) +> ![Berlin_r](../../images/x-array-map-plot/colormaps/berlin_r.png) > **Bilbao** -> ![bilbao]( ../../images/x-array-map-plot/colormaps/bilbao.png) +> ![bilbao](../../images/x-array-map-plot/colormaps/bilbao.png) > **Bilbao_r** -> ![Bilbao_r]( ../../images/x-array-map-plot/colormaps/bilbao_r.png ) +> ![Bilbao_r](../../images/x-array-map-plot/colormaps/bilbao_r.png) > **Binary** -> ![Binary]( ../../images/x-array-map-plot/colormaps/binary.png ) +> ![Binary](../../images/x-array-map-plot/colormaps/binary.png) > **Bone** -> ![Bone]( ../../images/x-array-map-plot/colormaps/bone.png ) +> ![Bone](../../images/x-array-map-plot/colormaps/bone.png) > **Brg** -> ![Brg]( ../../images/x-array-map-plot/colormaps/brg.png ) +> ![Brg](../../images/x-array-map-plot/colormaps/brg.png) > **Broc** -> ![Broc]( ../../images/x-array-map-plot/colormaps/broc.png ) +> ![Broc](../../images/x-array-map-plot/colormaps/broc.png) > **BrocO** -> ![BrocO]( ../../images/x-array-map-plot/colormaps/brocO.png ) +> ![BrocO](../../images/x-array-map-plot/colormaps/brocO.png) > **BrocO_r** -> ![BrocO_r]( ../../images/x-array-map-plot/colormaps/brocO_r.png ) +> ![BrocO_r](../../images/x-array-map-plot/colormaps/brocO_r.png) > **Broc_r** -> ![Broc_r]( ../../images/x-array-map-plot/colormaps/broc_r.png ) +> ![Broc_r](../../images/x-array-map-plot/colormaps/broc_r.png) > **Buda** -> ![Buda]( ../../images/x-array-map-plot/colormaps/buda.png ) +> ![Buda](../../images/x-array-map-plot/colormaps/buda.png) > **Buda_r** -> ![Buda_r]( ../../images/x-array-map-plot/colormaps/buda_r.png ) +> ![Buda_r](../../images/x-array-map-plot/colormaps/buda_r.png) > **Bukavu** -> ![Bukavu]( ../../images/x-array-map-plot/colormaps/bukavu.png ) +> ![Bukavu](../../images/x-array-map-plot/colormaps/bukavu.png) > **Bukavu_r** -> ![Bukavu_r]( ../../images/x-array-map-plot/colormaps/bukavu_r.png ) +> ![Bukavu_r](../../images/x-array-map-plot/colormaps/bukavu_r.png) > **Bwr** -> ![Bwr]( ../../images/x-array-map-plot/colormaps/bwr.png ) +> ![Bwr](../../images/x-array-map-plot/colormaps/bwr.png) > **Cool** -> ![Cool]( ../../images/x-array-map-plot/colormaps/cool.png ) +> ![Cool](../../images/x-array-map-plot/colormaps/cool.png) > **Coolwarm** -> ![Coolwarm]( ../../images/x-array-map-plot/colormaps/coolwarm.png ) +> ![Coolwarm](../../images/x-array-map-plot/colormaps/coolwarm.png) > **Copper** -> ![Copper]( ../../images/x-array-map-plot/colormaps/copper.png ) +> ![Copper](../../images/x-array-map-plot/colormaps/copper.png) > **Cork** -> ![Cork]( ../../images/x-array-map-plot/colormaps/cork.png ) +> ![Cork](../../images/x-array-map-plot/colormaps/cork.png) > **CorkO** -> ![CorkO]( ../../images/x-array-map-plot/colormaps/corkO.png ) +> ![CorkO](../../images/x-array-map-plot/colormaps/corkO.png) > **CorkO_r** -> ![CorkO_r]( ../../images/x-array-map-plot/colormaps/corkO_r.png ) +> ![CorkO_r](../../images/x-array-map-plot/colormaps/corkO_r.png) > **Cork_r** -> ![Cork_r]( ../../images/x-array-map-plot/colormaps/cork_r.png ) +> ![Cork_r](../../images/x-array-map-plot/colormaps/cork_r.png) > **Cubehelix** -> ![Cubehelix]( ../../images/x-array-map-plot/colormaps/cubehelix.png ) +> ![Cubehelix](../../images/x-array-map-plot/colormaps/cubehelix.png) > **Davos** -> ![Davos]( ../../images/x-array-map-plot/colormaps/davos.png ) +> ![Davos](../../images/x-array-map-plot/colormaps/davos.png) > **GnBu** -> ![GnBu]( ../../images/x-array-map-plot/colormaps/GnBu.png ) +> ![GnBu](../../images/x-array-map-plot/colormaps/GnBu.png) > **Greens** -> ![Greens]( ../../images/x-array-map-plot/colormaps/Greens.png ) +> ![Greens](../../images/x-array-map-plot/colormaps/Greens.png) > **Greys** -> ![Greys]( ../../images/x-array-map-plot/colormaps/Greys.png ) +> ![Greys](../../images/x-array-map-plot/colormaps/Greys.png) > **Imola** -> ![Imola]( ../../images/x-array-map-plot/colormaps/Imola.png ) +> ![Imola](../../images/x-array-map-plot/colormaps/Imola.png) > **OrRd** -> ![OrRd]( ../../images/x-array-map-plot/colormaps/OrRd.png ) +> ![OrRd](../../images/x-array-map-plot/colormaps/OrRd.png) > **Oranges** -> ![Oranges]( ../../images/x-array-map-plot/colormaps/Oranges.png ) +> ![Oranges](../../images/x-array-map-plot/colormaps/Oranges.png) > **Paired** -> ![Paired]( ../../images/x-array-map-plot/colormaps/Paired.png ) +> ![Paired](../../images/x-array-map-plot/colormaps/Paired.png) > **Pastel1** -> ![Pastel1]( ../../images/x-array-map-plot/colormaps/Pastel1.png ) +> ![Pastel1](../../images/x-array-map-plot/colormaps/Pastel1.png) > **Pastel2** -> ![Pastel2]( ../../images/x-array-map-plot/colormaps/Pastel2.png ) +> ![Pastel2](../../images/x-array-map-plot/colormaps/Pastel2.png) > **Davos_r** -> ![Davos_r]( ../../images/x-array-map-plot/colormaps/davos_r.png ) +> ![Davos_r](../../images/x-array-map-plot/colormaps/davos_r.png) > **Devon_r** -> ![Devon_r]( ../../images/x-array-map-plot/colormaps/devon_r.png ) +> ![Devon_r](../../images/x-array-map-plot/colormaps/devon_r.png) > **Devon** -> ![Devon]( ../../images/x-array-map-plot/colormaps/devon.png ) +> ![Devon](../../images/x-array-map-plot/colormaps/devon.png) > **Fes** -> ![Fes]( ../../images/x-array-map-plot/colormaps/fes.png ) +> ![Fes](../../images/x-array-map-plot/colormaps/fes.png) > **Fes_r** -> ![Fes_r]( ../../images/x-array-map-plot/colormaps/fes_r.png ) +> ![Fes_r](../../images/x-array-map-plot/colormaps/fes_r.png) > **Flag** -> ![Flag]( ../../images/x-array-map-plot/colormaps/flag.png ) +> ![Flag](../../images/x-array-map-plot/colormaps/flag.png) > **Gist_earth** -> ![Gist_earth]( ../../images/x-array-map-plot/colormaps/gist_earth.png ) +> ![Gist_earth](../../images/x-array-map-plot/colormaps/gist_earth.png) > **Gist_gray** -> ![Gist_gray]( ../../images/x-array-map-plot/colormaps/gist_gray.png ) +> ![Gist_gray](../../images/x-array-map-plot/colormaps/gist_gray.png) > **Gist_heat** -> ![Gist_heat]( ../../images/x-array-map-plot/colormaps/gist_heat.png ) +> ![Gist_heat](../../images/x-array-map-plot/colormaps/gist_heat.png) > **Gist_ncar** -> ![Gist_ncar]( ../../images/x-array-map-plot/colormaps/gist_ncar.png ) +> ![Gist_ncar](../../images/x-array-map-plot/colormaps/gist_ncar.png) > **Gist_rainbow** -> ![Gist_rainbow]( ../../images/x-array-map-plot/colormaps/gist_rainbow.png) +> ![Gist_rainbow](../../images/x-array-map-plot/colormaps/gist_rainbow.png) > **Gist_stern** -> ![Gist_stern]( ../../images/x-array-map-plot/colormaps/gist_stern.png) +> ![Gist_stern](../../images/x-array-map-plot/colormaps/gist_stern.png) > **Gist_yarg** -> ![Gist_yarg]( ../../images/x-array-map-plot/colormaps/gist_yarg.png) +> ![Gist_yarg](../../images/x-array-map-plot/colormaps/gist_yarg.png) > **Gnuplot** -> ![Gnuplot]( ../../images/x-array-map-plot/colormaps/gnuplot.png) +> ![Gnuplot](../../images/x-array-map-plot/colormaps/gnuplot.png) > **Gnuplot2** -> ![Gnuplot2]( ../../images/x-array-map-plot/colormaps/gnuplot2.png) +> ![Gnuplot2](../../images/x-array-map-plot/colormaps/gnuplot2.png) > **Gray** -> ![Gray]( ../../images/x-array-map-plot/colormaps/gray.png) +> ![Gray](../../images/x-array-map-plot/colormaps/gray.png) > **GrayC** -> ![GrayC](../../images/x-array-map-plot/colormaps/grayC.png ) +> ![GrayC](../../images/x-array-map-plot/colormaps/grayC.png) > **GrayC_r** -> ![GrayC_r]( ../../images/x-array-map-plot/colormaps/grayC_r.png) +> ![GrayC_r](../../images/x-array-map-plot/colormaps/grayC_r.png) > **Hawaii** -> ![Hawaii]( ../../images/x-array-map-plot/colormaps/hawaii.png) +> ![Hawaii](../../images/x-array-map-plot/colormaps/hawaii.png) > **Hawaii_r** -> ![Hawaii_r]( ../../images/x-array-map-plot/colormaps/hawaii_r.png) +> ![Hawaii_r](../../images/x-array-map-plot/colormaps/hawaii_r.png) > **Hot** -> ![Hot]( ../../images/x-array-map-plot/colormaps/hot.png ) +> ![Hot](../../images/x-array-map-plot/colormaps/hot.png) > **Hsv** -> ![Hsv]( ../../images/x-array-map-plot/colormaps/hsv.png ) +> ![Hsv](../../images/x-array-map-plot/colormaps/hsv.png) > **Imola_r** -> ![Imola_r]( ../../images/x-array-map-plot/colormaps/imola_r.png ) +> ![Imola_r](../../images/x-array-map-plot/colormaps/imola_r.png) > **Jet** -> ![Jet]( ../../images/x-array-map-plot/colormaps/jet.png ) +> ![Jet](../../images/x-array-map-plot/colormaps/jet.png) > **Lajolla** -> ![Lajolla]( ../../images/x-array-map-plot/colormaps/lajolla.png ) +> ![Lajolla](../../images/x-array-map-plot/colormaps/lajolla.png) > **Lajolla_r** -> ![Lajolla_r]( ../../images/x-array-map-plot/colormaps/lajolla_r.png ) +> ![Lajolla_r](../../images/x-array-map-plot/colormaps/lajolla_r.png) > **Lapaz** -> ![Lapaz]( ../../images/x-array-map-plot/colormaps/lapaz.png ) +> ![Lapaz](../../images/x-array-map-plot/colormaps/lapaz.png) > **Lapaz_r** -> ![Lapaz_r]( ../../images/x-array-map-plot/colormaps/lapaz_r.png ) +> ![Lapaz_r](../../images/x-array-map-plot/colormaps/lapaz_r.png) > **Lisbon** -> ![Lisbon]( ../../images/x-array-map-plot/colormaps/lisbon.png) +> ![Lisbon](../../images/x-array-map-plot/colormaps/lisbon.png) > **Lisbon_r** -> ![Lisbon_r]( ../../images/x-array-map-plot/colormaps/lisbon_r.png ) +> ![Lisbon_r](../../images/x-array-map-plot/colormaps/lisbon_r.png) > **Nipy_spectral** -> ![Nipy_spectral]( ../../images/x-array-map-plot/colormaps/nipy_spectral.png ) +> ![Nipy_spectral](../../images/x-array-map-plot/colormaps/nipy_spectral.png) > **Nuuk** -> ![Nuuk]( ../../images/x-array-map-plot/colormaps/nuuk.png ) +> ![Nuuk](../../images/x-array-map-plot/colormaps/nuuk.png) > **Nuuk_r** -> ![Nuuk_r]( ../../images/x-array-map-plot/colormaps/nuuk_r.png ) +> ![Nuuk_r](../../images/x-array-map-plot/colormaps/nuuk_r.png) > **Ocean** -> ![Ocean]( ../../images/x-array-map-plot/colormaps/ocean.png ) +> ![Ocean](../../images/x-array-map-plot/colormaps/ocean.png) > **Oleron** -> ![Oleron]( ../../images/x-array-map-plot/colormaps/oleron.png ) +> ![Oleron](../../images/x-array-map-plot/colormaps/oleron.png) > **Oslo** -> ![Oslo]( ../../images/x-array-map-plot/colormaps/oslo.png ) +> ![Oslo](../../images/x-array-map-plot/colormaps/oslo.png) > **Oslo_r** -> ![Oslo_r]( ../../images/x-array-map-plot/colormaps/oslo_r.png ) +> ![Oslo_r](../../images/x-array-map-plot/colormaps/oslo_r.png) > **Pink** -> ![Pink]( ../../images/x-array-map-plot/colormaps/pink.png ) +> ![Pink](../../images/x-array-map-plot/colormaps/pink.png) > **PRGn** -> ![PRGn]( ../../images/x-array-map-plot/colormaps/PRGn.png ) +> ![PRGn](../../images/x-array-map-plot/colormaps/PRGn.png) > **PiYG** -> ![PiYG]( ../../images/x-array-map-plot/colormaps/PiYG.png ) +> ![PiYG](../../images/x-array-map-plot/colormaps/PiYG.png) > **PuBu** -> ![PuBu]( ../../images/x-array-map-plot/colormaps/PuBu.png ) +> ![PuBu](../../images/x-array-map-plot/colormaps/PuBu.png) > **PuBuGn** -> ![PuBuGn]( ../../images/x-array-map-plot/colormaps/PuBuGn.png) +> ![PuBuGn](../../images/x-array-map-plot/colormaps/PuBuGn.png) > **PuOr** -> ![PuOr]( ../../images/x-array-map-plot/colormaps/PuOr.png ) +> ![PuOr](../../images/x-array-map-plot/colormaps/PuOr.png) > **PuRd** -> ![PuRd]( ../../images/x-array-map-plot/colormaps/PuRd.png ) +> ![PuRd](../../images/x-array-map-plot/colormaps/PuRd.png) > **Purples** -> ![Purples]( ../../images/x-array-map-plot/colormaps/Purples.png ) +> ![Purples](../../images/x-array-map-plot/colormaps/Purples.png) > **RdBu** -> ![RdBu]( ../../images/x-array-map-plot/colormaps/RdBu.png ) +> ![RdBu](../../images/x-array-map-plot/colormaps/RdBu.png) > **RdBu_r** -> ![RdBu_r]( ../../images/x-array-map-plot/colormaps/RdBu_r.png ) +> ![RdBu_r](../../images/x-array-map-plot/colormaps/RdBu_r.png) > **RdBu_r** -> ![RdBu_r]( ../../images/x-array-map-plot/colormaps/RdBu_r.png) +> ![RdBu_r](../../images/x-array-map-plot/colormaps/RdBu_r.png) > **RdGy_r** -> ![RdGy_r]( ../../images/x-array-map-plot/colormaps/RdGy_r.png ) +> ![RdGy_r](../../images/x-array-map-plot/colormaps/RdGy_r.png) > **RdPu** -> ![RdPu]( ../../images/x-array-map-plot/colormaps/RdPu.png) +> ![RdPu](../../images/x-array-map-plot/colormaps/RdPu.png) > **RdPu_r** -> ![RdPu_r](../../images/x-array-map-plot/colormaps/RdPu_r.png ) +> ![RdPu_r](../../images/x-array-map-plot/colormaps/RdPu_r.png) > **RdYIBu** -> ![RdYIBu]( ../../images/x-array-map-plot/colormaps/RdYIBu.png) +> ![RdYIBu](../../images/x-array-map-plot/colormaps/RdYIBu.png) > **RdYIGn** -> ![RdYIGn]( ../../images/x-array-map-plot/colormaps/RdYIGn.png) +> ![RdYIGn](../../images/x-array-map-plot/colormaps/RdYIGn.png) > **Reds** -> ![Reds](../../images/x-array-map-plot/colormaps/Reds.png ) +> ![Reds](../../images/x-array-map-plot/colormaps/Reds.png) > **Set1** -> ![Set1]( ../../images/x-array-map-plot/colormaps/Set1.png) +> ![Set1](../../images/x-array-map-plot/colormaps/Set1.png) > **Set2** -> ![Set2]( ../../images/x-array-map-plot/colormaps/Set2.png ) +> ![Set2](../../images/x-array-map-plot/colormaps/Set2.png) > **Set3** -> ![Set3]( ../../images/x-array-map-plot/colormaps/Set3.png ) +> ![Set3](../../images/x-array-map-plot/colormaps/Set3.png) > **Spectral** -> ![Spectral]( ../../images/x-array-map-plot/colormaps/Spectral.png ) +> ![Spectral](../../images/x-array-map-plot/colormaps/Spectral.png) > **Wistia** -> ![Wistia]( ../../images/x-array-map-plot/colormaps/Wistia.png ) +> ![Wistia](../../images/x-array-map-plot/colormaps/Wistia.png) > **YIGn** -> ![YIGn]( ../../images/x-array-map-plot/colormaps/YIGn.png ) +> ![YIGn](../../images/x-array-map-plot/colormaps/YIGn.png) > **YIGnBu** -> ![YIGnBu]( ../../images/x-array-map-plot/colormaps/YIGnBu.png ) +> ![YIGnBu](../../images/x-array-map-plot/colormaps/YIGnBu.png) > **YIOrBr** -> ![YIOrBr]( ../../images/x-array-map-plot/colormaps/YIOrBr.png ) +> ![YIOrBr](../../images/x-array-map-plot/colormaps/YIOrBr.png) > **YIOrRd** -> ![YIOrRd]( ../../images/x-array-map-plot/colormaps/YIOrRd.png ) +> ![YIOrRd](../../images/x-array-map-plot/colormaps/YIOrRd.png) > **Prism** -> ![Prism]( ../../images/x-array-map-plot/colormaps/prism.png ) +> ![Prism](../../images/x-array-map-plot/colormaps/prism.png) > **Rainbow** -> ![Rainbow]( ../../images/x-array-map-plot/colormaps/rainbow.png ) +> ![Rainbow](../../images/x-array-map-plot/colormaps/rainbow.png) > **Roma** -> ![Roma]( ../../images/x-array-map-plot/colormaps/roma.png ) +> ![Roma](../../images/x-array-map-plot/colormaps/roma.png) > **RomaO** -> ![RomaO]( ../../images/x-array-map-plot/colormaps/romaO.png ) +> ![RomaO](../../images/x-array-map-plot/colormaps/romaO.png) > **RomaO_r** -> ![RomaO_r]( ../../images/x-array-map-plot/colormaps/romaO_r.png ) +> ![RomaO_r](../../images/x-array-map-plot/colormaps/romaO_r.png) > **Roma_r** -> ![Roma_r]( ../../images/x-array-map-plot/colormaps/roma_r.png ) +> ![Roma_r](../../images/x-array-map-plot/colormaps/roma_r.png) > **Seismic** -> ![Seismic]( ../../images/x-array-map-plot/colormaps/seismic.png ) +> ![Seismic](../../images/x-array-map-plot/colormaps/seismic.png) > **Spring** -> ![Spring]( ../../images/x-array-map-plot/colormaps/spring.png ) +> ![Spring](../../images/x-array-map-plot/colormaps/spring.png) > **Summer** -> ![Summer]( ../../images/x-array-map-plot/colormaps/summer.png ) +> ![Summer](../../images/x-array-map-plot/colormaps/summer.png) > **Tab10** -> ![Tab10]( ../../images/x-array-map-plot/colormaps/tab10.png ) +> ![Tab10](../../images/x-array-map-plot/colormaps/tab10.png) > **Tab20** -> ![Tab20]( ../../images/x-array-map-plot/colormaps/tab20.png ) +> ![Tab20](../../images/x-array-map-plot/colormaps/tab20.png) > **Tab20b** -> ![Tab20b]( ../../images/x-array-map-plot/colormaps/tab20b.png ) +> ![Tab20b](../../images/x-array-map-plot/colormaps/tab20b.png) > **Tab20c** -> ![Tab20c]( ../../images/x-array-map-plot/colormaps/tab20c.png ) +> ![Tab20c](../../images/x-array-map-plot/colormaps/tab20c.png) > **Terrain** -> ![Terrain]( ../../images/x-array-map-plot/colormaps/terrain.png ) +> ![Terrain](../../images/x-array-map-plot/colormaps/terrain.png) > **Tofino** -> ![Tofino]( ../../images/x-array-map-plot/colormaps/tofino.png) +> ![Tofino](../../images/x-array-map-plot/colormaps/tofino.png) > **Tofino_r** -> ![Tofino_r]( ../../images/x-array-map-plot/colormaps/tofino_r.png ) +> ![Tofino_r](../../images/x-array-map-plot/colormaps/tofino_r.png) > **Tokyo** -> ![Tokyo]( ../../images/x-array-map-plot/colormaps/tokyo.png ) +> ![Tokyo](../../images/x-array-map-plot/colormaps/tokyo.png) > **Tokyo_r** -> ![Tokyo_r]( ../../images/x-array-map-plot/colormaps/tokyo_r.png ) +> ![Tokyo_r](../../images/x-array-map-plot/colormaps/tokyo_r.png) > **Turku** -> ![Turku]( ../../images/x-array-map-plot/colormaps/turku.png ) +> ![Turku](../../images/x-array-map-plot/colormaps/turku.png) > **Turku_r** -> ![Turku_r]( ../../images/x-array-map-plot/colormaps/turku_r.png ) +> ![Turku_r](../../images/x-array-map-plot/colormaps/turku_r.png) > **Vanimo** -> ![Vanimo]( ../../images/x-array-map-plot/colormaps/vanimo.png ) +> ![Vanimo](../../images/x-array-map-plot/colormaps/vanimo.png) > **Vanimo_r** -> ![Vanimo_r]( ../../images/x-array-map-plot/colormaps/vanimo_r.png ) +> ![Vanimo_r](../../images/x-array-map-plot/colormaps/vanimo_r.png) > **Vik** -> ![Vik]( ../../images/x-array-map-plot/colormaps/vik.png ) +> ![Vik](../../images/x-array-map-plot/colormaps/vik.png) > **VikO** -> ![VikO]( ../../images/x-array-map-plot/colormaps/vikO.png ) +> ![VikO](../../images/x-array-map-plot/colormaps/vikO.png) > **VikO_r** -> ![VikO_r]( ../../images/x-array-map-plot/colormaps/vikO_r.png ) +> ![VikO_r](../../images/x-array-map-plot/colormaps/vikO_r.png) > **Vik_r** -> ![Vik_r]( ../../images/x-array-map-plot/colormaps/vik_r.png ) +> ![Vik_r](../../images/x-array-map-plot/colormaps/vik_r.png) > **Winter** -> ![Winter]( ../../images/x-array-map-plot/colormaps/winter.png ) +> ![Winter](../../images/x-array-map-plot/colormaps/winter.png) > {: .details} diff --git a/topics/variant-analysis/tutorials/sars-cov-2/tutorial.md b/topics/variant-analysis/tutorials/sars-cov-2/tutorial.md index d1afa6214e001..b6528e96a9b70 100644 --- a/topics/variant-analysis/tutorials/sars-cov-2/tutorial.md +++ b/topics/variant-analysis/tutorials/sars-cov-2/tutorial.md @@ -238,7 +238,7 @@ First we need to find a good dataset to play with. The [Sequence Read Archive (S > > 1. Go to NCBI's SRA page by pointing your browser to https://www.ncbi.nlm.nih.gov/sra > 2. In the search box enter `SARS-CoV-2 Patient Sequencing From Partners / MGH`: -> ![Find data](../../../images/find_mgh_data.png) (Alternatively, you [simply access the data via link](https://www.ncbi.nlm.nih.gov/sra/?term=SARS-CoV-2+Patient+Sequencing+From+Partners+%2F+MGH)) +> ![Find data](../../images/find_mgh_data.png) (Alternatively, you [simply access the data via link](https://www.ncbi.nlm.nih.gov/sra/?term=SARS-CoV-2+Patient+Sequencing+From+Partners+%2F+MGH)) > 3. Note that some of the datasets found say "ARTICv3 amplicon sequencing". This is a sequencing technique that requires addition analysis steps not discussed in this tutorial. The data that we will analyse (datasets mentioned below) uses a technique called "metagenomic sequencing". > 4. The web page will show a large number of SRA datasets (at the time of writing there were 3,927). This is data from a [study](https://science.sciencemag.org/content/early/2020/12/09/science.abe3261) describing analysis of SARS-CoV-2 in Boston area. > 5. Download metadata describing these datasets by: @@ -267,7 +267,7 @@ Now that we have downloaded this file we can go to a Galaxy instance and start p > 1. Click *Upload Data* button: > ![Upload](../../images/upload_button.png) > 1. In the dialog box that would appear click "*Choose local files*" button: -> ![Choose local](../../../images/choose_local_files_button.png) +> ![Choose local](../../images/choose_local_files_button.png) > 1. Find and select `SraRunInfo.csv` file from your computer > 1. Click *Start* button > 1. Close dialog by pressing **Close** button