Complex microbial communities shape the dynamics of various environments, ranging from
the mammalian gastrointestinal tract to the soil. Advances in DNA sequencing technologies …

Increasingly, researchers are discovering associations between microbiome and a wide
range of human diseases such as obesity, inflammatory bowel diseases, HIV, and so on …

Differential abundance analysis is controversial throughout microbiome research. Gold
standard approaches require laborious measurements of total microbial load, or absolute …

Microorganisms are associated with all plants, recently leading to the hologenome concept.
We reviewed the assembly processes of plant microbiota and analyzed its structure during …

We present genesis, a library for working with phylogenetic data, and gappa, an
accompanying command-line tool for conducting typical analyses on such data. The tools …

Motivation Although seldom acknowledged explicitly, count data generated by sequencing
platforms exist as compositions for which the abundance of each component (eg gene or …

Background Next-generation sequencing (NGS) has made it possible to determine the
sequence and relative abundance of all nucleotides in a biological or environmental …

High-throughput sequencing technologies have revolutionized microbiome research by
allowing the relative quantification of microbiome composition and function in different …

Microbial community structure is highly sensitive to natural (eg, drought, temperature, fire)
and anthropogenic (eg, heavy metal exposure, land-use change) stressors. However …

Untargeted mass spectrometry is employed to detect small molecules in complex
biospecimens, generating data that are difficult to interpret. We developed Qemistree, a data …