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Index entry for an upstream research Skill intended for research work involving molecular biology design verification primers. Maintained upstream by JINAILAB; source files are not included in this pa…
Index entry for an upstream research Skill intended for research work involving molecular biology golden gate assembly. Maintained upstream by JINAILAB; source files are not included in this package.
Index entry for an upstream research Skill intended for research work involving multi agent research. Maintained upstream by Evan-miwillbe; source files are not included in this package.
Index entry for an upstream research Skill intended for research work involving neb ts. Maintained upstream by Hello-QM; source files are not included in this package.
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Writes the full Results section of a biomedical manuscript from a sufficiently clear result structure, figure inventory, or analysis summary while preserving evidence boundaries and result hierarchy.
Statistical differential expression analysis using DESeq2 or edgeR in R, with support for count matrix or tximport input.
Generate gene-level read count matrices from aligned BAMs using featureCounts or HTSeq-count.
Index entry for an upstream research Skill intended for research work involving molecular biology find restriction enzymes. Maintained upstream by JINAILAB; source files are not included in this packa…
Index entry for an upstream research Skill intended for research work involving molecular biology pcr simple. Maintained upstream by JINAILAB; source files are not included in this package.
Index entry for an upstream research Skill intended for research work involving multilevel modeling expert. Maintained upstream by ptreezh; source files are not included in this package.
Audit a manuscript or technical write-up before editing and produce a prioritized evidence-linked patch plan.
Use this skill whenever a session will touch a scientific-computing codebase (numerical methods, PDE solvers, inverse problems, OED, UQ, scientific ML, or any code that produces numbers) in Python, Ju…
Builds prioritized manuscript revision plans for major or minor revisions by separating comments that require experiments, analyses, clarification, restructuring, or wording changes.
Gene set enrichment and over-representation analysis using clusterProfiler, gseapy, or fgsea, with GO, KEGG, and Reactome pathway databases.
Alignment-free transcript-level quantification using Salmon or kallisto for fast and accurate RNA-seq expression estimates.
Index entry for an upstream research Skill intended for research work involving molecular biology find restriction sites. Maintained upstream by JINAILAB; source files are not included in this package…
Index entry for an upstream research Skill intended for planning, running, or documenting research experiments. Maintained upstream by wanshuiyin; source files are not included in this package.
Index entry for an upstream research Skill intended for research work involving nature downloader. Maintained upstream by Yuan1z0825; source files are not included in this package.
Read the .research/ manifest files at a project root and produce a single orientation memo (research question, datasets, current stage, key entrypoints, evidence artifacts, open questions). Use when t…
Organizes biomedical figures, analyses, and result blocks into a clear Results section structure with disciplined narrative ordering and evidence-aware presentation.
RNA-seq-specific alignment quality assessment using RSeQC and Qualimap for gene body coverage, strandedness, and rRNA contamination.
Splice-aware alignment of RNA-seq reads to a reference genome using STAR or HISAT2.
Use natural language to prepare, run, and interpret standalone rpsblast, rpstblastn, and rpsbproc workflows against NCBI CDD assets.