Skip to main content

DEmultiplexing MOnitoring Report Tool

Project description

demort evaluates demultiplexed fastq files by computing various metrics.


You need to install python 3.7 and depencies. Check version by typing on:

python3 --version

python3 depencies :


demort check fastq files into specified folder(s) then count number of reads for each fastq files for each folder and finally return a summary csv table and a pdf boxplot picture.

(process a list of folder as a strings) -d folder/folder1,folder/folder2,folder/folder3 \
 -t 8 \
 -p results.pdf \
 -o results.csv

(process a list of folder into a file) -d example/folder_to_process.txt \
 -t 8 \
 -p results.pdf \
 -o results.csv


complete flag argument short flag Default value Summary
--inputFolder -d NA a string of folderpath separated by coma , OR a file containing a list
--threads -t 1 Number of available cores
--output_pdf -p NA path of the file where to write a pdf boxplot picture
--output_csv -o NA path of the file where to write a csv table


├── folder1
│   ├── fqfileA.fq.gz
│   ├── fqfileB.fq.gz
│   └── fqfileC.fq.gz
├── folder2
│   ├── fqfileD.fq.gz
│   └── fqfileE.fq.gz
└── folder3
    ├── fqfileF.fq.gz
    ├── fqfileG.fq.gz
    └── fqfileH.fq.gz


  • summary csv table [foldername, filename, number of reads]
  • pdf boxplot picture


Linux (64-bit and 32-bit with slightly limited functionality) and macOS (OS X) are supported.

Project details

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distributions

No source distribution files available for this release. See tutorial on generating distribution archives.

Built Distribution

demort-0.2.4-py3-none-any.whl (4.9 kB view hashes)

Uploaded py3

Supported by

AWS AWS Cloud computing Datadog Datadog Monitoring Facebook / Instagram Facebook / Instagram PSF Sponsor Fastly Fastly CDN Google Google Object Storage and Download Analytics Huawei Huawei PSF Sponsor Microsoft Microsoft PSF Sponsor NVIDIA NVIDIA PSF Sponsor Pingdom Pingdom Monitoring Salesforce Salesforce PSF Sponsor Sentry Sentry Error logging StatusPage StatusPage Status page