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vidjil
vidjil
Commits
d0a4901a
Commit
d0a4901a
authored
Nov 04, 2021
by
Mathieu Giraud
Browse files
doc/roadmap.md: updates
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@flothoni
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# Roadmap
The development of the Vidjil platform is tracked with
[
gitlab
](
http://gitlab.vidjil.org
)
.
As of 202
0
, there are more than 1500
[
open issues
](
http://gitlab.vidjil.org/issues
)
,
but also more than
15
00 closed issues.
As of 202
1
, there are more than 1500
[
open issues
](
http://gitlab.vidjil.org/issues
)
,
but also
...
more than
20
00 closed issues.
Issues can be either in English or in French.
This roadmap is focused on user-facing features, even if many items involve more backend changes,
...
...
@@ -43,14 +43,14 @@ with software engineering.
-
Implement better repertoire comparisons #3857 #3855
-
Build another dedicated tool for full repertoire comparison (app-stats)
+
**Development: ongoing in
20
20
-
21**
🚧 @flothoni
+
Beta: Q
2
202
1
+
**Development: ongoing in
Q4
2021**
🚧 @flothoni
+
Beta: Q
1
202
2
## Better tools for MRD analysis
-
Run custom scripts for MRD #3838
+
**
Beta: Q4 2020
**
for #3846 ✅ @flothoni @meidanis
+
Availab
ility: Q1 2021,
contact us to set up your MRD scenarios
+
Beta: Q4 2020 for #3846 ✅
@flothoni @meidanis
+
**
Availab
le since 2021**
, ✅
contact us to set up your MRD scenarios
-
Better display MRD data in the web platform
...
...
@@ -58,30 +58,30 @@ with software engineering.
## Analysis of data with UMI, single-cell and/or paired chains
-
Provide more tools to analyze UMI data (demultiplexing to handle UMI) #2309
+
**Development: since 2020**
🚧 @flothoni
+
Beta: Q2 2021
+
Initial steps in 2020
+
Experimental configurations are available, contact us to setup UMI scenarios 🚧 @flothoni
+
Beta: 2021
-
Provide specific tools to analyze single cell data and/or paired chains data #2344
## Better sequence analysis
-
Show more sequence features (such as FR1...) in the sequence aligner #2135
+
**Development: Q4 2020**
🚧 @duez
+
Beta: Q1 2021
**
+
**Available since Q2 2021**
, ✅
-
Improve links to third-service analyses: ArrestSubsets #3917 ✅, VDJdb #1880
-
Improve the alignment between sequences #3332
-
Estimate clone lengths according to different primer sets #2043
+
Development:
Q
1
2021
⏳ @flothoni
+
**Available since
Q
2
2021
**
, ✅
## Server: statistics, including quality control, on a set of samples
-
Provide statistics given a set on samples #3171
-
Provide a quality control, for example on a run #2175
+
**Development
: since Q3 2019
**
🚧 @mikael-s @duez
+
Beta: Q
1
202
1
+
**Development
ongoing
**
🚧 @mikael-s @duez
+
Beta: Q
2
202
2
## Improved and extended analysis of some recombinations
...
...
@@ -126,13 +126,13 @@ They often require development or refactor work.
+
**Availability: Q2 2020**
✅
-
Better API documentation
+
Development:
Q1
202
1
⏳ @magiraud
+
Development: 202
2
⏳ @magiraud
-
More integration with IMGT/HighV-Quest
+
Ongoing collaboration with IMGT
-
More flexible exports (reports, image) #2233
+
Developmen
t
: Q
2
2021
⏳
@duez
+
Developmen: Q
4
2021
🚧
@duez
...
...
@@ -143,10 +143,10 @@ They often require development or refactor work.
+
2020-21: ongoing work on Aho-Corasick automaton 🚧
-
Speed-up the web client, especially when 10+ samples and/or 1000+ clones are displayed #3903 #2196 #2462
+
Q4
2020
,
... 🚧
+
since
2020 ... 🚧
-
Speed-up the web server, especially when handling 1000+ samples #3169
+
Q4
2020
,
... 🚧
+
since
2020 ... 🚧
These points are always ongoing:
We often work on backend changes that eventually improve the efficiency on the platform.
...
...
@@ -163,13 +163,12 @@ We often work on backend changes that eventually improve the efficiency on the p
+
New view(s) for comparing many samples #3895
-
Redesign the interface, improve the design #2245 #4600
+
Development (sequence analyzer):
Q4 2020-Q1 2021 🚧 @duez
+
Development (sequence analyzer):
Available since Q2 2021 ✅
+
Development (clone information)
+
Brainstorming on new view:
Q2-Q3
202
1
⏳
+
Brainstorming on new view: 202
2
⏳
-
Refactor the axis framework:
+
2020 ✅
+
New axes: Q2 2021 ⏳ @flothoni
+
2020, new axes in 2021 ✅
-
Improve the URLs
+
**Availability: Q3-Q4 2020**
✅
...
...
@@ -180,7 +179,7 @@ We often work on backend changes that eventually improve the efficiency on the p
-
Make the
[
VidjilNet Consortium
](
http://www.vidjil.net
)
grow
+
Expand the community, make more members join
+
Setup health
-data
(HDS, RGPD)
provider
: Q3 2020 ✅
+
Setup
[
health
care data hosting
](
http://www.vidjil.org/healthcare
)
(
HDS,
RGPD): Q3 2020 ✅
+
Regularly take into account user requests
-
Organize regularly Vidjil Workshops
...
...
@@ -189,7 +188,7 @@ We often work on backend changes that eventually improve the efficiency on the p
[
2017
](
http://www.vidjil.org/workshop-2017
)
,
[
2019
](
http://www.vidjil.org/workshop-2019
)
,
special edition
[
2020
](
http://vidjil.org/workshop-2020
)
✅,
[
202
1
](
http://vidjil.org/workshop-202
1
)
🚧
[
202
2
](
http://vidjil.org/workshop-202
2
)
🚧
-
Help the hospitals to get certification
+
First documents in 2020 for french COFRAC 🚧
...
...
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