Software downloads

Features

• Run Until alignment coverage added.
• DNA v5.0.0 model release with new 4mC/5mC model.
• Release of all context modification models on Mk1C (HAC Only).
• RNA v5.1 models: New models and support for m5C and inosine modified bases.
• Poly(A) tail estimation: Feature to estimate poly(A) tail lengths in RNA and cDNA sequencing runs.
• Customer hardware check - report produced.
• Ability to perform optional system update when doing MinKNOW update.
• Live remote transfer moved out of beta and also support for post-run offload and offload to NFS, and SMB, locations added. Offloads now include fasta, fasta.fai, and other relevant files.

Improvements

• Firewall activation is now enabled with a UI toggle option to switch this on/off. This will block all incoming connections including SSH.
• Outgoing connections remain possible.
• Improved MinKNOW run recovery during device errors (interruptible protocols).
• Q accuracy with alignment is now visible in the run report.
• Enhanced user experience for handling non-writable locations.
• Supports running multiple modified base models and defining the Q score filter.
• Real-time pore occupancy now displayed in the UI as a percentage.
• Pore scan output filtering and script optimisation.
• Support for new kits - Direct RNA Sequencing Kit XL and Microbial Amplicon Barcoding Sequencing Kit 24 V14.
• Read integrity checks - data loss detection.
• Security updates – disabled Developer API tokens.
• Improved read quality by trimming ends of blocked reads.

Bug Fixes

• Enhanced robustness to better handle position disconnections.
• Improved retry mechanism for basecalling skipped reads.
• Barcoding file names: Post-run barcoded files now have more specific names including the run ID.
• Prevents selection of modified base calling when using PCR kits.
• Short read filtering: Basecalling now excludes reads <5bp.
• File ID consistency: BAM and FASTQ files now align using the same protocol_run_id UUID.
• Always add filename_bam field to sequencing summary file.
• Fix for incorrect sort in alignment hits chart by coverage.
• Temporary remote storage paths now persist after reboot.
• FASTQs from MinKNOW and basecall server are now compatible with standalone barcoding.
• Improved performance during skip stages at end of runs.
• Fix for script crashes due to underlying system communication issues.
• Elimination of duplicate pause/resume actions which had caused the UI to freeze.
• Fix for channel selection and Adaptive Sampling.
• With basecalling off, raw reads now output to pod5 folder and not pod5_skip folder.
• Sample sheet error handling with no device detected.