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MetaFlow specifications


Unique identifier OMICS_11124
Name MetaFlow
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data There are two input files for the tool: (i) a mapping file: this is the aligner’s output file converted into another format which is easier to process by MetaFlow; (ii) a species database file: a file containing the names and lengths of the genomes in the reference database.
Output data MetaFlow generates different output files. All the files are in CSV format to make any further analysis easy.
Operating system Unix/Linux
Programming languages C++
Computer skills Advanced
Version 0.9.1
Stability Stable
Maintained Yes



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  • person_outline Alexandru Tomescu <>

Publication for MetaFlow

MetaFlow in publications

PMCID: 5609029
PMID: 28934964
DOI: 10.1186/s13059-017-1299-7

[…] binomial of various dataset properties, we found that whether data were simulated had no significant effect on the number of false positives detected for most tools (fig. , with the exception of metaflow, which showed a significant trend only with outliers and with few false positives overall, additional file : figure s2a). the decrease in precision could instead occur because the biological […]

PMCID: 4582491
PMID: 26504706
DOI: 10.3205/iprs000035

[…] the size of the catheter varied according to the diameter of the exposed vessel between 20g x 1¼″ (1.1 x 33 mm) und 16g x 2″ (1.7 x 50 mm). after preparation of the pre-injection, consisting of 10% metaflow®, 10% rectifiant® and 80% lukewarm tap water, 120 ml of this solution were injected into the radial artery. the purpose of this pre-injection was to flush the blood vessels of the hand, […]

PMCID: 2864754
PMID: 20463971
DOI: 10.1371/journal.pone.0010465

[…] regulation. relatively few calcium-related proteins were identified on day 1; two examples were cab39 and heg. while the cyp1a neighborhood itself was not heavily altered on day 1, it had metaflow go category connections “day 1→day 2” to “calcium ion transport”. in particular, although none of calmodulins were dioxin-regulated on day 1, eight of them were strongly over-expressed […]

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MetaFlow institution(s)
Helsinki Institute for Information Technology HIIT, Helsinki, Finland; Department of Computer Science, University of Helsinki, Helsinki, Finland
MetaFlow funding source(s)
This work was partially supported by the Academy of Finland under grants 284598 (CoECGR) and 274977.

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