20th June 2023
- In "Local basecalling", new benchmarks have been added for basecalling model keep-up on different sequencing devices.
May 2023
- Updated screenshots throughout the document with new images from the GUI: software release 23.04.X
- Added further images explaining different sequencing states.
- Have removed repeated screenshot images for other devices from the "MinKNOW GUI" and "Post-run analysis" sections.
- Updated the "Channel states" snippet to "Pore occupancy" snippet and further explained the channel states in more detail.
- In "post-run basecalling", .pod5 file compatibility has been added.
Download pdf12th September 2022
"Local basecalling" - minor changes to information about the basecalling models available in Guppy.
Download pdf4th July 2022
- Updated the 'Experiment configuration', 'Barcode demultiplexing', 'Alignment' and 'Channel states' steps with updated terminology for the most recent MinKNOW update
4th July 2022
- Updated the 'Experiment configuration', 'Barcode demultiplexing', 'Alignment' and 'Channel states' steps with updated terminology for the most recent MinKNOW update
24rd March 2022
Updates include:
- Added information about the system overview included in the new MinKNOW release in the MinKNOW GUI section.
- Updated image for output settings in 'Starting a sequencing run'
- Updated references from Duty Time plot to 'Pore Activity plot' and 'Mux scan' to 'Pore scan'.
17th September 2021
In "Post-run basecalling", an outdated table of basecalling models has been removed.
16 June 2021
- Updated all MinKNOW GUI screenshots to the updated 4.3 software
- Login screen updated with the option to change language between English and Mandarin
- All sequencing overview images have been updated to include the new bar at the top of the screen with the user profile option to log out of the software
- The Experiment configuration snippet has updated screenshots to include the addition of the 'More' option on the Start page
- 'Barcode demultiplexing' and 'Alignment' snippet has been updated with new screenshots as checkboxes have been updated to toggles
- 'Experiments page' snippet updated with the information available on the experiments page at a glance and screenshots updated to include the addition of the new bar at the top of the experiments page
- 'Experiment page: stats and physical layout' screenshots updated for: read length histogram, translocation speed and Qscore, cumulative output and traceviewer
- 'Basecaller model selection' snippet updated with new screenshot as the checkboxes have been replaced by toggles
- 'Post-run basecalling', 'post-run barcoding' and 'post-run alignment' sections updated to remove the screenshot of the review screen of the post-run analysis
12th Nov
Update for software update
9th July 2020
New UI across all devices
Alignment running in MinKNOW
Start of security upgrade - Login
Custom filtering of reads - q-score and read lengths
New barcoding options in the UI
Guppy 4.0 including new basecall models
Admin interface
Update to use Python 3.7
Various improvements to the scripts - new selection criteria at MUX scan, better handling of low-range reads and global flick and drift improvements
ont-vbz-hdf-plugin added as part of the release
Support for upcoming kits and expansion packs - Ligation Sequencing Kit (SQK-LSK110), Native Barcoding Expansion 1-96 (EXP-NBD196) and Rapid Barcoding Kit SQK-RBK096
18th May 2020
Updated Mk1C screenshots
11th March 2020
Updated snippets with relevant Mk 1C screenshots from Kingfisher software and Mooneye admin interface update.
5th December 2019
Updates for MinKNOW release v19.12.2 for MinION and GridION, featuring:
- Post-run basecalling updates - demultiplexing and folder creation enabled
- Updated PDF report
- Barcode trimming and graph of barcodes in the GUI
- New configurable compression options (VBZ for .fast5 and gzip for FASTQ)
- Updates to file names and locations to consolidate data per run
- GUI updates - disk write speed graph, Trigger MUX Scan button and updates to read length histogram
- Protocols updates - Improved MUX scan voltage during runs and MinKNOW allows time for strands to finish prior to starting MUX scan
- Script configuration is reported in MinKNOW about box
- Channel scans enabled for Flongle
- Sequencing Summary updated to include end_reason
- Rename of positions in file paths and on the GUI reflect the actual names on the box - X1, X2, X3, X4 and X5
- Support for upcoming kits
- Bug fix for ModBaseProbs naming when generated in MinKNOW
8th October 2019
Updates to document in line with MinKNOW v19.10 release. This inlcudes:
- Barcode demultiplexing
- Model selection - FAST, HAC and Modified base calling
- Post-run basecalling
- Updated graphs and other information
Updates to documentation in accordance with MinKNOW release 19.05
Download pdfUpdates to documentation in accordance with MinKNOW release v2.2
Download pdfUpdates for MinKNOW GUI v2.0
Download pdf