Comments (4)
If this ends up happening, we definitely don't want to have protected member variables in Smooshables.
from linearham.
- SmooshableStack should just be a vector of Smooshables, and use the corresponding methods
- What about passing SmooshableStacks to SmooshableChains?
Proposal: Rejigger SmooshableChain to be able to incrementally add Smooshables on the right.
- SmooshableChain then keeps around a
viterbi_idxs
matrix vector. More efficient to have a tree-like object (look in STL?) - Perhaps only unwind to get a Viterbi path by making a corresponding method?
- Build a function that takes a vector of Stacks and then returns a vector of Chains.
from linearham.
New proposal:
SmooshableChains subclass Smooshables
This equips them with
- a
prev_
pointer to the Smooshable/SmooshableChain to its left - an actual
viterbi_
matrix, in contrast to the Smooshable viterbi matrix which is just the marginal matrix IntVector viterbi_path_
for the viterbi path so far- a method that creates a new SmooshableChain by smooshing a Smooshable on the right
SmooshableStacks are of SmooshableChains, and have a method to smoosh a given vector of Smooshables onto the right of each element in the SmooshableStack.
from linearham.
Closed by 98583d6
from linearham.
Related Issues (20)
- remove dockerhub image HOT 1
- git describe crashes build HOT 1
- Do we really want to use scons? HOT 3
- NodeList object where it expected a string HOT 1
- change actions to positional argument
- make default tag on quay.io HOT 1
- Use new partis fcn add_seqs_to_line() HOT 4
- Cause of huge number of low-probability nodes HOT 6
- update readme with newer (?) output files HOT 2
- update partis + maybe add --min-cluster-size arg HOT 1
- Docker container doesn't build HOT 2
- light chain crash HOT 3
- Github Actions & Quay Container building HOT 2
- Update Master -> Main
- crash in asr/ess script HOT 7
- Inferred ancestral sequences have mutations in ambiguous regions
- Branch lengths almost all much larger than hamming distance
- Add option for less verbose output dir HOT 1
- Failed Quay build from trigger
- How to handle paired h/l data
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from linearham.