Mikhail Shugay

migec. A RepSeq processing swiss-knife

mageri. MAGERI - Assemble, align and call variants for targeted genome re-sequencing with unique molecular identifiers

oncofuse. Predicting oncogenic potential of gene fusions

repseq-tutorial. Rep-Seq data analysis tutorial

vdjtools-examples. A set of real-world RepSeq datasets used for testing the VDJtools software

mageri-paper. Data and post-analysis for MAGERI project

jsres. Java implementation of Stochastic Ranking Evolutionary Strategy optimization algorithm.

igblast-bin. IgBlast v1.4.0 binaries dump for homebrew, etc. Please refer to official web page

aging-study. Metadata and some analysis for the T-cell repertoire aging study

duplicates. Analysis of duplicate reads in Illumina sequencing

exome-misc. Miscellaneous tools for exome-seq: annotating SNP, counting molecules on start, etc

vdjtools-doc. THIS REPOSITORY IS DEPRECATED, FOR ISSUE TRACKER GO TO

mixcr. MiXCR is a universal software for fast and accurate analysis of T- and B- cell receptor repertoire sequencing data.

repseq-snippets. Java

polyfid. Polymerase fidelity estimates

claude-obsidian-memory. Two-way sync a repo's Claude Code memory into an Obsidian vault — per-fact notes, a core Bases dashboard, cross-linking, and compaction.