Comments (3)
Hi Arianna,
Is your genome file already split into individual genes?
from carveme.
Hi Daniel,
no it is not yet. Do I need to do annotation first? Which tool would you recommend best? Prokka, Rast or which other?
from carveme.
Yeah, you need to run something that will identify the ORFs and create a fasta file with the individual genes. I don't have so much experience with that, but I think Prokka should be fine.
from carveme.
Related Issues (20)
- CarveMe doesnโt satisfy the original protein complex definitions during the building of GPRs
- GPR rules and COBRA HOT 1
- Where to find the biomass equation for FBA?
- Problems gapfilling with CPLEX and Gurobi HOT 4
- Diamond version incompatible / TypeError: sequence item 0
- 'BiGG_gene' is both an index level and a column label, which is ambiguous.
- incompatibility with BIGG formula
- Biomass reaction in bacteria_universe sums to 1.03
- Error when giving user universe
- ImportError: cannot import name 'SCIPSolver' from 'reframed.solvers' HOT 9
- How to create a universe?
- I meet some errors when I use CarveMe for gap-filling HOT 4
- Is it necessary to use a VNC server for the modeling process using CarveMe?
- Having issues with cyanobacteria universe in latest version, and cplex installation for carveme version 1.4
- Do not work with scipy 1.12.0 HOT 2
- Hidden universe?
- First time installation issue
- SCIP with gap-filling and init HOT 5
- How to include new single species metabolic model in the model database HOT 1
- Location of gapfill outputs
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
๐ 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. ๐๐๐
-
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 โค๏ธ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from carveme.