CAMI-challenge OPAL issues

CAMI-challenge / OPAL

OPAL: Open-community Profiling Assessment tooL

https://cami-challenge.github.io/OPAL/

Apache License 2.0

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issues

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Issue with CAMI OPAL Integration into Galaxy Platform

#59 ber58 closed 4 months ago
1
Use OPAL for metabarcoding assessment

#58 paulzierep opened 7 months ago
2
Bray-Curtis distance calculation

#57 rpelicaen closed 8 months ago
1
Bump jinja2 from 3.1.2 to 3.1.3

#56 dependabot[bot] opened 10 months ago
0
How does OPAL compute unifrac?

#55 c4-driod closed 1 year ago
1
Labels in Spider plots are incorrect color

#54 Tiam-F closed 1 year ago
1
How to convert into CAMI Bioboxes format?

#53 eparisis closed 1 year ago
2
The required Python version 3.7 is not compatible with suggested pandas version

#52 dawnmy closed 1 year ago
1
Bump numpy from 1.21.4 to 1.22.0 in /requirements

#51 dependabot[bot] opened 2 years ago
0
Option -r RANKS seems to not do much (GOLDSTD requires strain)

#50 4less closed 2 years ago
1
TypeError: format() got an unexpected keyword argument 'precision'

#49 zhang570221322 closed 2 years ago
1
AttributeError: unexpected attribute 'callback' to Slider, similar attributes are js_event_callbacks

#48 zhang570221322 closed 2 years ago
0
AttributeError: unexpected attribute 'callback' to Slider, similar attributes are js_event_callbacks

#47 zhang570221322 closed 2 years ago
4
Proportions on stacked barplot not summing up to 100

#46 ScaonE closed 2 years ago
1
Example command

#45 ScaonE closed 2 years ago
1
Fail to generate fingures and HTML with self-made gold-standard profile without "strain" data

#44 shenwei356 closed 2 years ago
17
conda dependencies

#43 shenwei356 closed 3 years ago
2
Add option to filter out certain taxa

#42 fernandomeyer opened 3 years ago
0
Future warning

#41 dkoslicki closed 2 years ago
0
Add mean L1 norm to absolute plots

#40 dkoslicki closed 1 year ago
0
Filtering done before calling `compute_metrics` so that all metrics get filtered profiles

#39 dkoslicki closed 2 years ago
2
Bump version and release

#38 dkoslicki closed 2 years ago
0
Add tree visualizations

#37 dkoslicki closed 2 years ago
1
Recover ability to set all internal branch lengths equal to 1, accounting for missing internal nodes

#36 dkoslicki opened 4 years ago
0
Check if branch lengths in EMDUnifrac are populating correctly

#35 dkoslicki closed 4 years ago
1
Add ability to not normalize when computing EMDUnifrac

#34 dkoslicki closed 2 years ago
3
Expose branch length function on CLI for EMDUnifrac

#33 dkoslicki closed 4 years ago
3
Interactive ranking plots labeled incorrectly

#32 dkoslicki closed 4 years ago
1
Modify EMDUnifrac so the results are more informative

#31 dkoslicki closed 2 years ago
6
Strains in the gold standard?

#30 luizirber closed 4 years ago
3
Python version wrong?

#29 davidbio closed 2 years ago
0
Rankings on superkingdom and spcies level

#28 nlapier2 closed 5 years ago
1
Scoring Ties

#27 nlapier2 closed 5 years ago
3
Fix html collision

#26 sjanssen2 closed 6 years ago
1
ImportError: No module named 'html.parser'; 'html' is not a package

#25 sjanssen2 closed 6 years ago
2
Error when running tsv2biom.py

#24 muslih14 closed 6 years ago
6
Discrepancies in L1 norm between opal and CAMI

#23 dkoslicki closed 6 years ago
7
a starter for a non interactive bar plot via seaborn

#22 sjanssen2 closed 2 years ago
1
config file

#21 sjanssen2 closed 6 years ago
1
New multi-sample toy data set

#20 abremges closed 6 years ago
7
Private -> Public

#19 sjanssen2 closed 6 years ago
2
Add biome fomat as input formats

#18 alicemchardy closed 7 years ago
4
assessment on CAMI data

#17 alicemchardy closed 6 years ago
6
add f1-score metric

#16 alicemchardy closed 7 years ago
1
define metrics in readme

#15 alicemchardy opened 7 years ago
0
Highscore Figure 3c

#14 sjanssen2 closed 7 years ago
0
ranking table

#13 sjanssen2 closed 7 years ago
5
Using pandas for organizing metrics results and reporting into files

#12 sjanssen2 closed 7 years ago
1
add required minimal number of profiles to readme

#11 sjanssen2 closed 7 years ago
1
alpha/beta diversity measures

#10 abremges closed 6 years ago
15