Comments (1)
Here is primitive Seq lang implementation
# Seq lang implementation
import sys
if len(sys.argv) == 1:
print("Usage: fqcnt.py <in.fq.gz>")
sys.exit(0)
fn = sys.argv[1]
n, slen, qlen = 0, 0, 0
for r in FASTQ(fn):
n += 1
slen += len(r.read)
qlen += len(r.qual)
print(n, "\t", slen, "\t", qlen)
The above was faster for unzipped and gzipped test files on my system compared to https://github.com/lh3/biofast/blob/master/fqcnt/fqcnt_py2_rfq.py commit 948cf33 , but I couldn't figured out how to compile with I couldn't get the above code to run with gcc
and used the seqc
JIT implementation.hyperfine
and merely compared timings with time
from biofast.
Related Issues (7)
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 biofast.