Reproducibility

The latest published version of Lambda can be found here:
https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btae097/7629128?rss=1&login=false

The specific version of Lambda used in the benchmarks is:
https://github.com/seqan/lambda/commit/d995cb5d99990943622bb8149ba52cdaf9c0eb76

Query files used in the paper

ID / link	Query set	Length	Molecule	Source
⇩ q1	Strain diversity	150 bp	DNA (simulated)	CAMI II challenge (2022)
⇩ q2	Plant-associated	150 bp	DNA (simulated)	CAMI II challenge (2022)
⇩ q3	Topsoil	251 bp	DNA	Bahram et al. (2018)
⇩ q4	Colorectal tumor (gut microbiome)}	125 bp	RNA	Visnovska et al. (2019)
⇩ q5	Strain diversity	150 bp	DNA (simulated, in silico bisulfite-converted)	CAMI II challenge (2022)
⇩ q6	Plant-associated	150 bp	DNA (simulated, in silico bisulfite-converted)	CAMI II challenge (2022)
⇩ q7	Xenograft breast tumor	125 bp	Bisulfite-converted cell-free DNA	Liu et al. (2021)
⇩ q8	Fungi	76 bp	Bisulfite-converted DNA	Bewick et al. (2019)

Databases used in the paper

Database	Date	Tax	Download Size	Domain
⇩ Uniref50	20220525	☐	38GB	Protein
⇩ Human microbiome project	20220607	☐	12GB	Nucleotide
⇩ Human microbiome project	20220607	☐	20GB	Bisulfite
⇩ Human microbiome project (+ mm10 + hg19)	20220607	☐	39GB	Bisulfite
⇩ Fungi genomes	20220607	☐	15GB	Bisulfite