A command line client for uploading sequencing metrics from Oxford Nanopore Technologies MinKNOW to a LooseLab minoTour server instance.
MinFQ only supports minknow core 4.X.X as it uses ONT’s minknow-api, which is only compatible with said version of MinKNOW.
However, base called data can be uploaded from any version of MinKNOW/Guppy.
To install -
pip install minFQExample Commands
In the example commands below example parameters are:
your_user_key: is the long string found in the profile section of your minoTour account.
url_to_your_minotour_server: Probably 127.0.0.1, could be a remote address like minotour.nottingham.ac.uk
port_for_your_server: Probably 8000
To monitor both live and fastq data.
minFQ -k [your_user_key] -w /path/to/your/fastq/files -ip 127.0.0.1 -hn
[url_to_your_minotour_server] -p [port_for_your_server]To monitor just live data from minKNOW.
minFQ -k [your_user_key] -ip 127.0.0.1 -hn [url_to_your_minotour_server]
-p [port_for_your_server] -nfTo monitor live data and enable limited remote control of minKNOW.
minFQ -k [your_user_key] -ip 127.0.0.1 -hn [url_to_your_minotour_server]
-p [port_for_your_server] -nf -rcTo monitor just fastq data.
minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server]
-p [port_for_your_server] -nmTo monitor fastq statistics only. (Note you will not be able to run subsequent analysis on the server which requires sequence data).
minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server]
-p [port_for_your_server] -nm -sTo start an analysis remotely whilst uploading data. Note reference Id may not be required.
minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server]
-p [port_for_your_server] -nm -j [job_id] -r [reference_id]minFQ Gui
We are in the process of rebuilding a minFQ gui. Watch this space.
Release files for minFQ 1.4.7
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| minFQ-1.4.7.tar.gz | 37.3 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| minFQ-1.4.7-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 103.5 kB
Release files / minFQ-1.4.7.tar.gz
| Download URL | minFQ-1.4.7.tar.gz |
|---|---|
| Size | 37.3 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
685bfb6e3c4a30172e7e884bb72364849a7808099afa13240f5681f82c2e6aa7
|
|
BLAKE2b-256 checksum How to use checksums |
f1d3a2087265819052338ccba9457caae60a7c12fe1589443c5d301dafaa71e8
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/3.4.2 importlib_metadata/4.8.1 pkginfo/1.7.1 requests/2.26.0 requests-toolbelt/0.9.1 tqdm/4.61.2 CPython/3.9.6
|
Release files / minFQ-1.4.7-py3-none-any.whl
| Download URL | minFQ-1.4.7-py3-none-any.whl |
|---|---|
| Size | 66.3 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
70e454695d66b4b57ec5170ed1fa072ed9e54eda2922167e00507b905ebd3daa
|
|
BLAKE2b-256 checksum How to use checksums |
0ef85fd19d17b372ebc7ac56365877643b1a7946430c9d526555d131c4e9a41e
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/3.4.2 importlib_metadata/4.8.1 pkginfo/1.7.1 requests/2.26.0 requests-toolbelt/0.9.1 tqdm/4.61.2 CPython/3.9.6
|
