Comments (1)
Well, the initial choice was pretty much arbitrary - we were looking for a BLASR replacement. I did not do any benchmarks myself, but according to Heng Li's preprint minimap2 is more sensitive - https://arxiv.org/abs/1708.01492. Plus, it is easier to integrate into the existing codebase (less extra dependencies). If you feel that GraphMap should work better, you are always welcome to propose changes via pull request :)
from flye.
Related Issues (20)
- Command '['flye-modules', 'assemble', '--reads' HOT 2
- Better assembly with partial reads than full dataset HOT 2
- Positive and Negative Sense concatenating together for each contig HOT 16
- Flye output only 1 contig HOT 2
- Inclusion of reads <5000 results in increased fragmentation of assembly HOT 2
- How does Flye resolve 'unbridged' repeats? HOT 3
- No disjointigs were assembled(WARNING: No overlaps found - unable to estimate parameters)
- Best parameter for nanopore R9 HOT 6
- direct RNA Seq data with flye? HOT 1
- Metagenome HOT 1
- corrupted double-linked list HOT 3
- Meanings of both '--keep-halotypes' and '--no-alt-contigs'. HOT 7
- free(): invalid next size (fast) at "Simplifying the graph" HOT 4
- Assembly of complex genomes with high rate of genome rearrangements HOT 2
- Anomaly in resource usage HOT 7
- What parameter for R10.4.1 FAST mode data HOT 1
- Can't resume from a definite polishing step ? HOT 4
- flye usage HOT 1
- I am running an assembly on an ONT reads, but it was aborted HOT 1
- Flye assembler should support spaces in file paths. 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 flye.