Comments (1)
macmanes
commented on July 26, 2024
Hi,
-
I compared, and found the same qualitative results. Of note, Trinity is installed via conda. As of today, 2.8.4 is the version installed.
-
Yes. Replaced! It's not that they behave so similarly, but instead that TransABySS actually finished, and does not use crazy amounts of RAM. Tho Shannon did perform well when we could get it to finish, for something like 50% of datasets would hang, or use >512Gb of RAM, which is too much. TransABySS frankly does not have some of the good properties of Shannon, but at least it is not a barrier.
-
Do you mean run the 4 assemblies in parallel, at the same time? If so, yes, in theory that can happen. You'd add the
-jflag to the command. So,-j 4for 4 parallel jobs. BUT I will say that I have not tested this, and it may not work at the moment. In fact, it most surely will not work. Let me know if this is something critical to your workflow and I can work on it.
from oyster_river_protocol.
Related Issues (20)
- BUSCO datasets HOT 12
- Pipeline crashed at transabyss HOT 2
- Error 141 on installation test HOT 5
- Error during installation Python >=3.5 HOT 2
- awk: program limit exceeded: maximum number of fields size=32767 HOT 2
- Run on singularity / without logging into container
- Installation and Usage questions HOT 1
- Orthofinder failure when running test dataset
- Add external assemblies to OrthFuse?
- Several Samples for Assembly
- orthofuser.mk run failure HOT 1
- Empty file at Foo.list7
- ORP | Can handle single-end files HOT 1
- sampledata test failed HOT 2
- Issue with SPADES2/Kmer length HOT 1
- Reduce orthofuse intermediate file count HOT 1
- TransRate-ORP: Which modifications were made? HOT 2
- Computation of the unique genes per assembly provided by the quality report
- ORP 2.3.3 with docker doesn't start HOT 1
- Make error HOT 1
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 oyster_river_protocol.