Atlas

Sylvain Prigent
Updated Feb. 5, 2019
detection
spot
image processing

ATLAS is a spot detection method. The spots size is automatically selected and the detection threshold adapts to the local image dynamics.

ATLAS relies on the Laplacian of Gaussian (LoG) filter, which both reduces noise and enhances spots. A multiscale representation of the image is built to automatically select the optimal LoG variance. Then, local statistics of the LoG image are estimated in a Gaussian window, and the detection threshold is pointwise inferred from a probability of false alarm (PFA). Hence, the user only has to specify:

1. the standart deviation of the Gaussian window,
2. the PFA value.

The Gaussian window must be about the size of the background structures. Increasing the PFA increases the number of detections.

Run a job
Use the API

In order to run a job you need to be identified or register a new account.

API Reference

The following curl command will create a job (note: job[webapp] is required, all other parameters are optional):

curl -H 'Authorization: Token token=<your private_token>' \
    -X POST https://allgo18.inria.fr/api/v1/jobs \
    -F 'job[webapp]=atlas' \
    -F 'job[version]=1.0.0' \
    -F 'job[param]=' \
    -F 'job[queue]=standard' \
    -F 'files[0]=@test.txt' \
    -F 'files[1]=@test2.csv'

Monitor its progress:

curl -H 'Authorization: Token token=<your private_token>' \
    https://allgo18.inria.fr/api/v1/jobs/JOB_ID/events

Get the result:

curl -H 'Authorization: Token token=<your private_token>' \
    https://allgo18.inria.fr/api/v1/jobs/JOB_ID

Abort the job:

curl -H 'Authorization: Token token=<your private_token>' \
    -X POST https://allgo18.inria.fr/api/v1/jobs/JOB_ID/abort

Delete the job:

curl -H 'Authorization: Token token=<your private_token>' \
    -X DELETE https://allgo18.inria.fr/api/v1/jobs/JOB_ID