Experiments
Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).
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Has reproduction · 59
WASP: a versatile, web-accessible single cell RNA-Seq processing platform.
PMID 33736596 · PMC7977290 · BMC genomics · 2021 · 7 claims · 7 setups
WASP is a software platform for processing Drop-Seq-based scRNA-seq data generated with ddSEQ or 10x protocols, combining a Snakemake pre-processing pipeline with an R Shiny post-processing application.
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Has reproduction · 74
MicroPIPE: validating an end-to-end workflow for high-quality complete bacterial genome construction.
PMID 34172000 · PMC8235852 · BMC genomics · 2021 · 8 claims · 8 setups
MicroPIPE, an end-to-end Nextflow/Singularity-based pipeline built from systematically validated tool choices, produces high-quality complete bacterial genome assemblies without manual intervention.
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Has reproduction · 50
MasterOfPores: A Workflow for the Analysis of Oxford Nanopore Direct RNA Sequencing Datasets.
PMID 32256520 · PMC7089958 · Frontiers in genetics · 2020 · 8 claims · 5 setups
MasterOfPores is a scalable, parallelizable, containerized (Docker/Singularity) NextFlow workflow for analyzing Oxford Nanopore direct RNA sequencing datasets
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Has reproduction · 52
epiGBS2: Improvements and evaluation of highly multiplexed, epiGBS-based reduced representation bisulfite sequencing.
PMID 35178872 · PMC9311447 · Molecular ecology resources · 2022 · 8 claims · 8 setups
epiGBS2 provides a laboratory protocol and revised bioinformatics pipeline for de novo cytosine methylation and SNP calling in species with or without a reference genome