blobtoolkit/blobtoolkit-3.1.10.zip
blobtoolkit-blobtoolkit-039ec31
.bumpversion.cfg
1.4 kB
.coveragerc
200 Bytes
.github
dependabot.yml
329 Bytes
workflows
package-blobtoolkit.yml
8.1 kB
test-blobtoolkit.yml
2.5 kB
.gitignore
148 Bytes
.pre-commit-config.yaml
310 Bytes
.pylintrc
17.2 kB
.pylintrc_tests
17.2 kB
.travis.yml
746 Bytes
AUTHORS
256 Bytes
LICENSE
1.1 kB
MANIFEST.in
552 Bytes
README.md
4.8 kB
bump_version.sh
393 Bytes
conftest.py
339 Bytes
examples
assembly.fasta
292.0 kB
assembly.reads.bam
2.6 kB
blast.out
6.8 kB
blobDB.json
8.2 kB
busco.tsv
20.6 kB
diamond.out
595 Bytes
list.json
198 Bytes
meta.yaml
226 Bytes
reads_1.fq.gz
1.1 kB
reads_2.fq.gz
1.1 kB
package-api.sh
116 Bytes
package-ui.sh
215 Bytes
pip_install_latest.sh
516 Bytes
pre-commit.sh
252 Bytes
pyproject.toml
294 Bytes
requirements.txt
303 Bytes
run_tests.sh
1.1 kB
setup.cfg
954 Bytes
setup.py
9.7 kB
src
api
.env.dist
170 Bytes
api.md
5.8 kB
package-lock.json
200.3 kB
package.json
1.1 kB
package.sh
430 Bytes
src
app.js
1.4 kB
config
main.js
2.4 kB
swagger.js
588 Bytes
functions
io.js
2.6 kB
io.spec.js
1.4 kB
models
dataset.js
10.9 kB
dataset.spec.js
3.8 kB
field.js
1.8 kB
field.spec.js
8.7 kB
repository.js
304 Bytes
repository.spec.js
642 Bytes
public
index.html
377 Bytes
routes
api_routes.js
178 Bytes
dataset_routes.js
5.1 kB
dataset_routes.spec.js
3.5 kB
field_routes.js
5.6 kB
field_routes.spec.js
872 Bytes
identifier_routes.js
1.0 kB
image_routes.js
5.3 kB
index.js
716 Bytes
search_routes.js
13.1 kB
slice_routes.js
1.9 kB
summary_routes.js
952 Bytes
swagger_routes.js
970 Bytes
shared
functions
utils.js
2.3 kB
utils.spec.js
4.6 kB
models
dataset.js
1.3 kB
field.js
3.3 kB
filter.js
2.3 kB
filter.spec.js
11.7 kB
repository.js
171 Bytes
repository.spec.js
404 Bytes
blobtools
__init__.py
278 Bytes
__main__.py
92 Bytes
blobtools.py
3.1 kB
example
FXWY01
ERR1656467_cov.json
2.0 kB
ERR1656467_read_cov.json
1.6 kB
bestsumorder_class.json
1.2 kB
bestsumorder_class_cindex.json
987 Bytes
bestsumorder_class_positions.json
280.3 kB
bestsumorder_class_score.json
1.6 kB
bestsumorder_family.json
1.5 kB
bestsumorder_family_cindex.json
987 Bytes
bestsumorder_family_positions.json
286.6 kB
bestsumorder_family_score.json
1.6 kB
bestsumorder_genus.json
1.5 kB
bestsumorder_genus_cindex.json
987 Bytes
bestsumorder_genus_positions.json
287.6 kB
bestsumorder_genus_score.json
1.6 kB
bestsumorder_kingdom.json
1.0 kB
bestsumorder_kingdom_cindex.json
987 Bytes
bestsumorder_kingdom_positions.json
279.2 kB
bestsumorder_kingdom_score.json
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bestsumorder_order.json
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bestsumorder_order_cindex.json
987 Bytes
bestsumorder_order_positions.json
282.8 kB
bestsumorder_order_score.json
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bestsumorder_phylum.json
1.1 kB
bestsumorder_phylum_cindex.json
987 Bytes
bestsumorder_phylum_positions.json
279.5 kB
bestsumorder_phylum_score.json
1.6 kB
bestsumorder_positions.json
292.5 kB
bestsumorder_species.json
2.1 kB
bestsumorder_species_cindex.json
987 Bytes
bestsumorder_species_positions.json
295.0 kB
bestsumorder_species_score.json
1.6 kB
bestsumorder_superkingdom.json
1.0 kB
bestsumorder_superkingdom_cindex.json
987 Bytes
bestsumorder_superkingdom_positions.json
279.2 kB
bestsumorder_superkingdom_score.json
1.6 kB
eukaryota_odb9_busco.json
12.0 kB
gc.json
1.9 kB
identifiers.json
3.9 kB
length.json
1.7 kB
meta.json
15.6 kB
metazoa_odb9_busco.json
24.4 kB
ncount.json
1.1 kB
nematoda_odb9_busco.json
35.7 kB
lib
__init__.py
208 Bytes
add.py
9.1 kB
bed.py
19.6 kB
blob_db.py
9.8 kB
busco.py
4.7 kB
calc.py
3.0 kB
cov.py
10.2 kB
dataset.py
8.8 kB
fasta.py
4.9 kB
fetch.py
3.1 kB
field.py
11.8 kB
file_io.py
3.9 kB
filter.py
18.9 kB
hits.py
25.2 kB
host.py
7.5 kB
key.py
1.1 kB
link.py
1.5 kB
remove.py
3.8 kB
run_external.py
705 Bytes
synonyms.py
2.4 kB
taxdump.py
3.7 kB
taxid.py
1.2 kB
text.py
13.2 kB
trnascan.py
2.0 kB
validate.py
12.2 kB
version.py
87 Bytes
view.py
17.4 kB
schema
basic.schema.json
1.3 kB
meta.schema.json
1.3 kB
subschemas
array.data.schema.json
509 Bytes
array.meta.schema.json
506 Bytes
assembly.basic.schema.json
1.1 kB
assembly.schema.json
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category.data.schema.json
536 Bytes
category.meta.schema.json
340 Bytes
fields.schema.json
2.6 kB
identifier.data.schema.json
446 Bytes
identifier.meta.schema.json
348 Bytes
multiarray.data.schema.json
585 Bytes
multiarray.meta.schema.json
521 Bytes
plot.schema.json
698 Bytes
reads.schema.json
1.2 kB
taxon.basic.schema.json
419 Bytes
taxon.schema.json
445 Bytes
variable.data.schema.json
363 Bytes
variable.meta.schema.json
866 Bytes
btk
__init__.py
41 Bytes
__main__.py
86 Bytes
btk.py
1.6 kB
lib
version.py
87 Bytes
btk_pipeline
README.md
11.0 kB
__init__.py
60 Bytes
__main__.py
107 Bytes
add_reads.smk
919 Bytes
blastn.smk
933 Bytes
blobtoolkit.smk
1.2 kB
blobtools.smk
1.5 kB
btk_pipeline.py
1.6 kB
busco.smk
1.0 kB
chunk_stats.smk
970 Bytes
cov_stats.smk
961 Bytes
diamond.smk
927 Bytes
diamond_blastp.smk
844 Bytes
lib
__init__.py
0 Bytes
add_summary_to_metadata.py
4.4 kB
chunk_fasta.py
11.6 kB
count_busco_genes.py
3.7 kB
data.py
659 Bytes
extract_busco_genes.py
3.2 kB
functions.py
7.0 kB
generate_config.py
20.3 kB
generate_configs.sh
327 Bytes
generate_static_images.py
5.1 kB
lsf_wrapper.sh
2.0 kB
resume_pipeline.py
3.4 kB
run.py
3.1 kB
run_btk_pipeline.sh
1.5 kB
track_bioproject_accessions.py
4.1 kB
transfer_completed.py
5.6 kB
unchunk_blast.py
2.5 kB
version.py
87 Bytes
window_stats.py
6.8 kB
minimap.smk
950 Bytes
rules
_transfer_dataset.smk
597 Bytes
add_cov_to_tsv.smk
570 Bytes
add_summary_to_metadata.smk
491 Bytes
checksum_files.smk
545 Bytes
chunk_fasta.smk
891 Bytes
chunk_fasta_by_busco.smk
1.1 kB
chunk_nohit_fasta.smk
879 Bytes
combine_stats.smk
576 Bytes
count_busco_genes.smk
826 Bytes
extract_busco_genes.smk
830 Bytes
extract_nohit_fasta.smk
831 Bytes
generate_images.smk
950 Bytes
generate_summary.smk
467 Bytes
get_chunked_stats.smk
960 Bytes
get_window_stats.smk
675 Bytes
run_bamtools_stats.smk
500 Bytes
run_blastn.smk
2.1 kB
run_blobtools_add.smk
1.4 kB
run_blobtools_create.smk
2.0 kB
run_busco5.smk
2.3 kB
run_diamond_blastp.smk
1.3 kB
run_diamond_blastx.smk
1.3 kB
run_minimap2_align.smk
971 Bytes
run_minimap2_index.smk
745 Bytes
run_mosdepth.smk
665 Bytes
run_sub_pipeline.smk
2.2 kB
run_windowmasker.smk
970 Bytes
unchunk_blastn.smk
619 Bytes
unchunk_blastx.smk
660 Bytes
unzip_assembly_fasta.smk
380 Bytes
validate_dataset.smk
757 Bytes
view.smk
1.7 kB
window_stats.smk
885 Bytes
windowmasker.smk
821 Bytes
demo
FXWY01
ERR1656467_cov.json
2.0 kB
ERR1656467_read_cov.json
1.6 kB
bestsumorder_class.json
1.2 kB
bestsumorder_class_cindex.json
987 Bytes
bestsumorder_class_positions.json
280.3 kB
bestsumorder_class_score.json
1.6 kB
bestsumorder_family.json
1.5 kB
bestsumorder_family_cindex.json
987 Bytes
bestsumorder_family_positions.json
286.6 kB
bestsumorder_family_score.json
1.6 kB
bestsumorder_genus.json
1.5 kB
bestsumorder_genus_cindex.json
987 Bytes
bestsumorder_genus_positions.json
287.6 kB
bestsumorder_genus_score.json
1.6 kB
bestsumorder_kingdom.json
1.0 kB
bestsumorder_kingdom_cindex.json
987 Bytes
bestsumorder_kingdom_positions.json
279.2 kB
bestsumorder_kingdom_score.json
1.6 kB
bestsumorder_order.json
1.3 kB
bestsumorder_order_cindex.json
987 Bytes
bestsumorder_order_positions.json
282.8 kB
bestsumorder_order_score.json
1.6 kB
bestsumorder_phylum.json
1.1 kB
bestsumorder_phylum_cindex.json
987 Bytes
bestsumorder_phylum_positions.json
279.5 kB
bestsumorder_phylum_score.json
1.6 kB
bestsumorder_positions.json
292.5 kB
bestsumorder_species.json
2.1 kB
bestsumorder_species_cindex.json
987 Bytes
bestsumorder_species_positions.json
295.0 kB
bestsumorder_species_score.json
1.6 kB
bestsumorder_superkingdom.json
1.0 kB
bestsumorder_superkingdom_cindex.json
987 Bytes
bestsumorder_superkingdom_positions.json
279.2 kB
bestsumorder_superkingdom_score.json
1.6 kB
eukaryota_odb9_busco.json
12.0 kB
gc.json
1.9 kB
identifiers.json
3.9 kB
length.json
1.7 kB
meta.json
15.6 kB
metazoa_odb9_busco.json
24.4 kB
ncount.json
1.1 kB
nematoda_odb9_busco.json
35.7 kB
docker
Dockerfile
1.8 kB
api
.env
276 Bytes
Dockerfile
707 Bytes
blobtools
Dockerfile
1.8 kB
env.yaml
185 Bytes
env.yaml
303 Bytes
startup.sh
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viewer
.env
104 Bytes
Dockerfile
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packaged-viewer
package-lock.json
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package.json
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package.sh
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src
app.js
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viewer
.babelrc
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.bumpversion.cfg
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.env.dist
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.prettierignore
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AUTHORS
264 Bytes
CHANGELOG.md
489 Bytes
INSTALL.md
67 Bytes
LICENSE
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README.md
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package-lock.json
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package.json
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package.sh
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postcss.config.js
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src
client
favicon
android-chrome-192x192.png
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android-chrome-512x512.png
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apple-touch-icon.png
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favicon-16x16.png
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favicon-32x32.png
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favicon.ico
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manifest.json
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index.html
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main.js
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views
actions
dataset.js
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components
App.jsx
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App.scss
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AxisTitle.jsx
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BTKLogos.jsx
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Busco.jsx
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BuscoData.jsx
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BuscoPlot.jsx
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CanvasCircle.jsx
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Caption.scss
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CategoryDistribution.jsx
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CategoryLegend.jsx
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CategoryPlotBoundary.jsx
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CircleAxis.jsx
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CumulativePlot.jsx
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CumulativePlotBoundary.jsx
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Customise.scss
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CustomiseDatasetTable.jsx
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DOIBadge.jsx
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Dataset.jsx
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DatasetApplyFilters.jsx
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DatasetCreateList.jsx
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DatasetModal.jsx
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DatasetSpinner.jsx
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DatasetTable.jsx
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DatasetTableCSV.jsx
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DatasetTree.jsx
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Datasets.scss
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DetailPlot.jsx
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Error.jsx
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ExportButton.jsx
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ExternalLink.jsx
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FAQ.scss
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FAQs.jsx
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Field.jsx
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FieldBox.jsx
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FieldBoxHeader.jsx
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FieldBoxHeaderFilterButtons.jsx
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FieldRawDataPreview.jsx
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FieldSet.jsx
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Fields.scss
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FilterBoxHeader.jsx
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FilterControlCategory.jsx
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FilterControlRange.jsx
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FilterDisplayRange.jsx
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FilterPreview.jsx
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Filters.jsx
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Filters.scss
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FindDatasets.jsx
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GetStarted.jsx
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Header.jsx
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HomePage.jsx
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HomePage.scss
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Icon.scss
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LassoSelect.jsx
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Layout.jsx
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Layout.scss
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LayoutControls.jsx
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LayoutHeader.jsx
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LayoutPlots.jsx
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Link.jsx
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ListModal.jsx
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Main.jsx
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MainPlot.jsx
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MainPlotBoundary.jsx
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MenuDatasetMain.jsx
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NoBlobWarning.jsx
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NoHitWarning.jsx
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NoPlot.jsx
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Palette.jsx
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Palette.scss
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PaletteSwatch.jsx
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Palettes.jsx
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Plot.scss
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PlotAxisTitle.jsx
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PlotBubbleSVG.jsx
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PlotBubbles.jsx
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PlotBubblesCanvas.jsx
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PlotBubblesCanvasLayers.jsx
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PlotBubblesSVGLayers.jsx
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PlotHexBinsSVG.jsx
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PlotHexGridSVG.jsx
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PlotKitesSVG.jsx
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PlotLayer.jsx
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PlotLayerTab.jsx
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PlotLayerTabs.jsx
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PlotLegend.jsx
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PlotLinesSVG.jsx
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PlotMissing.jsx
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PlotParameters.jsx
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PlotRefKitesSVG.jsx
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PlotSquareBinSVG.jsx
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PlotSquareBinsSVG.jsx
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PlotSquareGridSVG.jsx
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PlotTransformLines.jsx
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PreviewBar.jsx
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PreviewBars.jsx
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PreviewPlotBoundary.jsx
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RecordModal.jsx
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ReferenceAssembliesList.jsx
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Repository.jsx
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Repository.scss
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RepositoryDataset.jsx
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RepositoryDatasetList.jsx
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Routes.jsx
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Search.jsx
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Search.scss
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SnailPlotScale.jsx
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Spinner.jsx
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StaticBuscoPlot.jsx
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StaticMissing.jsx
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StaticPlot.jsx
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StaticWarning.jsx
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Suggestions.jsx
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TableCSV.jsx
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TablePlot.jsx
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Tree.scss
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TreeMapPlot.jsx
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XPlot.jsx
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YPlot.jsx
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img
bbsrc-logo.png
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ebi-logo.png
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ena-logo.png
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figure1.jpg
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figure2.jpg
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hex_blur.jpg
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sanger-logo.png
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uoe-logo.png
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style
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svg
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category.svg
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svg.svg
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test.svg
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weather.svg
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zero.svg
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containers
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index.jsx
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layouts
default.jsx
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querySync.jsx
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reducers
api.js
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color.js
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dataset.js
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datasetTable.js
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datasetTree.js
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dimension.js
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field.js
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filter.js
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gdpr.js
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hexFunctions.js
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history.js
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identifiers.js
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list.js
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location.js
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plot.js
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plotData.js
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plotHexBins.js
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plotOverlay.js
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plotParameters.js
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plotSquareBins.js
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plotStyles.js
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preview.js
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record.js
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reference.js
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repository.js
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root.js
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select.js
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selectTools.js
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selectorCreators.js
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summary.js
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tracking.js
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store.jsx
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config
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environment.js
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main.js
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swagger.js
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public
index.html
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webpack.config.js
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tests
files
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gc.json
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identifiers.json
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length.json
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meta.json
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ncount.json
5.3 kB
UELW01.busco.actinopterygii_odb10.tsv
455.3 kB
infile
17 Bytes
infile.gz
44 Bytes
unit_tests
test_field.py
7.7 kB
test_file_io.py
2.6 kB
test_taxdump.py
989 Bytes
test_taxid.py
1.7 kB
tox.ini
2.1 kB