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.
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4th 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'.
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- 'Basecaller model selection' snippet updated with new screenshot as the checkboxes have been replaced by toggles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
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
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