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Comments (2)

cauliyang avatar cauliyang commented on August 30, 2024

current method

from pxblat import Client, Server


with Server() as server:
    server.wait_for_ready()
    client("atcg")

Future

from pxblat import Client, Server


with Server() as server:
    server.wait_for_ready()
    client(["atcg", "CTag"])

using gevent as backend for multiple querys, and make multiple querys as default support.

from pxblat import Client, Server


with Server() as server:
    server.wait_for_ready()
    client(["atcg"])

Ideas

  • support mixed usage of lower and upper case for sequences i.e. "atcg", "aTcg"

Performance Test

I did the performance evaluatation on the platform: OS: macOS 13.4.1 22F82 arm64 Host: MacBookPro18.
The scripts locates on tests/test_result.py

Data Set Samples BLAT PXBLAT(pool 1) PXBLAT(pool 8) PXBLAT(pool 4)
benchmark/fas/1 200 61.4011 50.4143 (1.2179x) 50.4404 (1.2168x) 50.6144
benchmark/fas/2 200 61.6994 51.0984 (1.2075x) 51.7131 (1.1962x) 50.9714
benchmark/fas/3 200 55.3351 46.4404 (1.1915x) 46.5768 (1.1820x)
benchmark/fas/4 200 56.9760 47.7234 (1.1939x) 47.2242 (1.1975x)
benchmark/fas/5 200 54.5457 46.4391 (1.1746x) 45.4927 (1.1900x)

from pxblat.

cauliyang avatar cauliyang commented on August 30, 2024

from pxblat.

Related Issues (18)

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