Commit d0a4901a authored by Mathieu Giraud's avatar Mathieu Giraud
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doc/roadmap.md: updates

Vu en partie avec @flothoni
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# Roadmap
The development of the Vidjil platform is tracked with [gitlab](http://gitlab.vidjil.org).
As of 2020, there are more than 1500 [open issues](http://gitlab.vidjil.org/issues),
but also more than 1500 closed issues.
As of 2021, there are more than 1500 [open issues](http://gitlab.vidjil.org/issues),
but also... more than 2000 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 2020-21** 🚧 @flothoni
+ Beta: Q2 2021
+ **Development: ongoing in Q4 2021** 🚧 @flothoni
+ Beta: Q1 2022
## Better tools for MRD analysis
- Run custom scripts for MRD #3838
+ **Beta: Q4 2020** for #3846 ✅ @flothoni @meidanis
+ Availability: Q1 2021, contact us to set up your MRD scenarios
+ Beta: Q4 2020 for #3846 ✅ @flothoni @meidanis
+ **Available 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: Q1 2021 ⏳ @flothoni
+ **Available since Q2 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: Q1 2021
+ **Development ongoing** 🚧 @mikael-s @duez
+ Beta: Q2 2022
## 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 2021 ⏳ @magiraud
+ Development: 2022 ⏳ @magiraud
- More integration with IMGT/HighV-Quest
+ Ongoing collaboration with IMGT
- More flexible exports (reports, image) #2233
+ Development: Q2 2021 @duez
+ Developmen: Q4 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 2021
+ Brainstorming on new view: 2022
- 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 [healthcare 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) ✅,
[2021](http://vidjil.org/workshop-2021) 🚧
[2022](http://vidjil.org/workshop-2022) 🚧
- Help the hospitals to get certification
+ First documents in 2020 for french COFRAC 🚧
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