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 · 100
nf-core/mag: a best-practice pipeline for metagenome hybrid assembly and binning.
PMID 35118380 · PMC8808542 · NAR genomics and bioinformatics · 2022 · 8 claims · 7 setups
nf-core/mag is a Nextflow/nf-core pipeline for hybrid metagenome assembly, binning and taxonomic classification of MAGs.
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Has reproduction · 86
LMAS: evaluating metagenomic short de novo assembly methods through defined communities.
PMID 36576131 · PMC9795473 · GigaScience · 2022 · 8 claims · 5 setups
LMAS (Last Metagenomic Assembler Standing) is a flexible, Nextflow-based, Docker-containerized automated workflow for benchmarking de novo metagenomic assemblers against defined mock communities, producing an interactive HTML report.
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Has reproduction · 78
Fungal metabarcoding data integration framework for the MycoDiversity DataBase (MDDB).
PMID 32463383 · PMC7734503 · Journal of integrative bioinformatics · 2020 · 6 claims · 5 setups
The MycoDiversity DataBase (MDDB) is a curated repository integrating public fungal metabarcoding data of environmental samples to study fungal biodiversity patterns in space and time.
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Has reproduction · 83
MetaGT: A pipeline for de novo assembly of metatranscriptomes with the aid of metagenomic data.
PMID 36386613 · PMC9651917 · Frontiers in microbiology · 2022 · 7 claims · 4 setups
MetaGT is a pipeline that combines metatranscriptomic and metagenomic data from the same sample to assemble complete transcript sequences