Between different P. chabaudi isolates differences exist in virulence- and invasion phenotypes of blood stage infections (see Additional file 6).
For the main classification analysis, we discounted the derivative, as we wanted to isolate differences in spatial activity patterns, rather than different temporal profiles.
This procedure isolates differences in the shape of distributions independent of overall differences in amplitude.
Pairwise comparisons, with a Bonferroni adjustment (used to maintain an overall type-I error rate of 5%), were used to isolate differences in group means: dividing the probability value (0.05) by the number of pairwise comparisons to be made.
For the serial in vivo MR spectroscopy data and viral loads, repeated measures analysis of variance RM-ANOVAA) in combination with Holm's t-tests was employed to isolate differences between time-points within the cohorts using JMP 7.0 (SAS, Cary, NC).
To isolate differences in obtained mean values of depth, dive frequency and variance in Ta and Tb between regions and during transit, we used a multi-comparison Analysis of Variance with a set of Bonferroni corrected t-tests [48] and reported when significant.
When a significant F-ratio was obtained, a Newman-Keuls post hoc procedure was used to isolate differences.
We did this to avoid time-varying (test retest) factors and to isolate differences in the instrumentation.
However, due to the high genetic variability of E. histolytica isolates, differences between pathogenic and non-pathogenic isolates might simply reflect inter-isolate variation rather than specific differences linked to virulence.
The advantage of single-cell analysis over merely deep sequencing, whether for DNA or RNA, lies in the ability of the former to isolate differences and to phase possibly multiple differences within subpopulations.
