MiXCR v4.4.2

🚀 New features

• Two-fold align step speedup for most of the protocol-specific presets (see the list below)
• Import tags from sequence headers by parsing its content with regular expressions
• Highly optimized generic presets for amplicon/rna-seq sequence by long-read sequencers such as Pacific Biosciences and Oxford Nanopore: generic-ont, generic-ont-with-umi, generic-pacbio, generic-pacbio-with-umi

🐞 Bug fixes

• Fixes crush when input contains quality scores > 70
• Fixes excessive memory consumption issue for long read data
• Fix for crush in assemble with UMI tags but with consensus assembler turned off

👷 Other minor adjustments

• Long-read J gene aligner optimization
• FLAIRR-seq preset optimized with new long-read-optimized aligner
• Quality trimming is disabled for long-read aligner
• Removed qc reports for clustered alignments and clones
• The following presets have been optimized by specifying a single reverse/direct alignment mode and now work faster:
  takara-human-rna-bcr-umi-smartseq, takara-human-rna-bcr-umi-smarter,takara-human-rna-tcr-umi-smartseq,takara-human-rna-tcr-umi-smarter-v2,takara-human-rna-tcr-smarter,takara-mouse-rna-bcr-smarter,takara-mouse-rna-tcr-smarter,10x-sc-xcr-vdj,10x-sc-5gex,abhelix-human-rna-xcr,bd-human-sc-xcr-rhapsody-cdr3,bd-mouse-sc-xcr-rhapsody-cdr3,bd-sc-xcr-rhapsody-full-length,cellecta-human-rna-xcr-umi-drivermap-air,illumina-human-rna-trb-ampliseq-sr,illumina-human-rna-trb-ampliseq-plus,irepertoire-human-rna-xcr-repseq-sr,irepertoire-human-rna-xcr-repseq-lr,irepertoire-mouse-rna-xcr-repseq-sr,irepertoire-mouse-rna-xcr-repseq-lr,irepertoire-human-rna-xcr-repseq-plus,irepertoire-mouse-rna-xcr-repseq-plus,irepertoire-human-dna-xcr-repseq-sr,irepertoire-human-dna-xcr-repseq-lr,milab-human-rna-ig-umi-multiplex,milab-human-rna-tcr-umi-race,milab-human-rna-tcr-umi-multiplex,milab-human-dna-tcr-multiplex,milab-human-dna-xcr-7genes-multiplex,milab-mouse-rna-tcr-umi-race,neb-human-rna-xcr-umi-nebnext,qiagen-human-rna-tcr-umi-qiaseq