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Questions related from Giovanni Bubici
I would analyze such designs with one-way ANOVA, though I’m wondering whether factorial-ANOVA or nested-ANOVA can be used. The research question is the following: is the behavior of a parasitoid...
04 April 2016 4,681 11 View
Should replicates within blocks be averaged prior to ANOVA in CRBD? For example, consider a factorial experiment with CRBD, with the two factors A (Levels 1 and 2) and B (Levels 1 and 2), and 4...
06 June 2015 9,797 8 View
A 'case' sample and a 'control' sample have been sequenced using Illumina platform. After bioinformatic processing, my database contains million of reads, each consisting of 3 nucleotide (codon)...
01 January 2015 5,127 20 View
In a genome database (nucleotide sequence) located in my computer, I would like to identify a given conserved domain, e.g., a given PSSM or a given Pfam. For this purpose, I looked at PSI-BLAST...
12 December 2014 8,620 4 View
An insect individual is placed in a box that has 6 sectors, each holding a different food. The insect is placed in the center of the box, and it is free to go in any sector. After it enter into a...
04 April 2014 2,327 17 View
Commonly, I use the MANOVA statement in the GLM procedure of SAS (general linear models) to perform a multivariate analysis of variance on continuous dependent variables. Also, I use the statement...
04 April 2014 9,306 8 View
Imagine that I want to study the effects of certain stresses on plant. Besides of the several parameters that I measure to study such effects, I want to evaluate, finally, the fitness of plant...
01 January 2014 7,030 16 View
For example, data consisting of a proportions with: - Numerator (time required to do something, in seconds) and Denominator (duration of experiment, in seconds) - Numerator (number of events) and...
12 December 2013 1,546 6 View
An insect is put inside a box where it can choose to go to one or another food. The insect can do one choice individually, and several choices are possible. Therefore, the insect cannot do two or...
12 December 2013 7,160 10 View
I usually perform mapping of reads to reference genes or genomes using bowtie, that yield an output SAM mapping file. I can import and view such SAM files into CLC Genomics Workbench, but I'm...
07 July 2013 3,920 5 View
I would like to know about some statistical procedure to compare growth curves like in the attached graph. In particular, I would like to highlight the distance between curves and their different...
05 May 2013 1,006 16 View
Consider a factorial experiment with three independent variables (A, B, Time) and one continuous dependent variable (length), and consider that the experiment is repeated multiple times (e.g. 2 or...
05 May 2013 9,627 16 View
We know that LD50 is the dose of a chemical able to kill 50% population of an organism. I wonder if the same concept may be used for a growth speed. In particular, I would like to know if a LD50...
03 March 2013 6,723 13 View
In a graph showing the progress over time of the probability to find a pathogen within plant tissues, I'm wondering if standard deviation or standard error bars can be added. The probability to...
02 February 2013 5,957 49 View
I have a GFF file containing positions of annotations (Transposons, mRNA, etc.), and the FASTA file of the reference genome (i.e. Vitis vinifera). I would like to transfer the GFF into a FASTA...
01 January 2013 9,539 29 View
Due to the specific BLAST algorithm, short sequences cannot be used as queries. Thus, I wonder if there are other methods to search homology of short sequences with ESTs or mRNAs. For example, can...
01 January 2013 8,933 8 View
Using small RNA libraries and Illumina sequencing, I would like to detect the differentially expressed small RNA in plant samples and understand their biological meaning and function. I'm using...
11 November 2012 627 0 View
I would like to test the normality of data and homogeneity of variances for a factorial experiment. For example, given three fixed crossed factors i.e. A, B, C, with 3 replicates (1,2,3). Should...
11 November 2012 6,246 9 View
I would like to analyze data where the dependent variable is a count and the independent variables are categorical. The count is the number of positive events out of the total. Which method when...
10 October 2012 5,163 93 View
I would like to detect transposon elements (I have an Annotation Track file in gff3 format) in my sRNA libraries (fasta format file). I was able to do it using a Perl script, but it works very...
10 October 2012 2,727 4 View
