The package CellBarcode performs Cellular DNA Barcode analysis. It can handle all kinds of DNA barcodes, as long as the barcode is within a single sequencing read and has a pattern that can be matched by a regular expression. \code{CellBarcode} can handle barcodes with flexible lengths, with or without UMI (unique molecular identifier). This tool also can be used for pre-processing some amplicon data such as CRISPR gRNA screening, immune repertoire sequencing, and metagenome data.
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bioMate-AI/biomate-bioconductor-kb☆ 8042026年6月21日 更新
Run or plan targeted DNA panel variant workflows that use UMIs, duplex consensus reads, molecular barcodes, low-frequency calling, target coverage, and panel-specific QC.
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openai/plugins☆ 7,4252026年10月8日 更新
SpotClean is a computational method to adjust for spot swapping in spatial transcriptomics data. Recent spatial transcriptomics experiments utilize slides containing thousands of spots with spot-specific barcodes that bind mRNA. Ideally, unique molecular identifiers at a spot measure spot-specific expression, but this is often not the case due to bleed from nearby spots, an artifact we refer to as spot swapping. SpotClean is able to estimate the contamination rate in observed data and decontamin
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bioMate-AI/biomate-bioconductor-kb☆ 8042026年6月21日 更新
Odoo 19 development knowledge base with 18 specialized guides covering Actions (ir.actions.*, cron jobs, server actions), Controllers (HTTP routing, endpoints, auth types), Data files (XML/CSV records, shortcuts, noupdate), API Decorators (@api.depends, @api.constrains, @api.ondelete, @api.onchange, @api.model, @api.private), SQL Constraints (models.Constraint replacing _sql_constraints), Database Indexes (models.Index), Module development (manifest, wizards, reports), Field types (Char, Text, Monetary, relational fields), Manifest configuration (__manifest__.py, dependencies, asset bundles), Mixins (mail.thread, mail.activity.mixin, mail.alias.mixin, utm.mixin), ORM Model methods (search, CRUD, domain filters, recordsets, CamelCase model naming), Migration scripts (pre/post/end hooks, data migration), OWL frontend components (hooks, services, lifecycle), Performance optimization (N+1 prevention, batch ops, _read_group), QWeb Reports (PDF/HTML, paper formats, barcodes, t-out), Security/ACL (record rules, field permissions, privilege-based groups, @api.private), Testing (TransactionCase, HttpCase, mocking, query count assertions), Transactions (savepoints, UniqueViolation, serialization failures), Translations (i18n, PO files, translatable fields), XML Views (list/form/search, kanban card templates, xpath inheritance, QWeb templates). Use when writing, reviewing, or debugging any Odoo 19 Python or XML code, creating or modifying modules, fixing performance issues, or looking up Odoo 19 API patterns and best practices. Includes CSS/SCSS asset authoring and review for Odoo addons.
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unclecatvn/agent-skills☆ 1452026年9月24日 更新