What is the best approach for E. coli phylogenetics?

I have four whole genomes sequencing of E. coli isolates , and I wanna to classify in phylogenetics groups. Whats is the best ways? Thanks.

31 December 2019 4,581 1 View

Does any one have idea about mmpbsa for change the temperature?

I need calculate MM/PBSA with MMPBSA.py but in output file "MMPBSA_info" the temperature is marked for default in -INPUT['temp'] = 298.15 and y need run that analysis in 310 k, I looking in...

07 August 2019 9,953 2 View

How can I perform a consensus tree from results of the same BEAST file ran on different computers?

- I have several .tree files derived from the same BEAST file ran on different computers but I need to perform a consensus on those trees, is there a program for that?

08 September 2018 4,512 4 View

Create a SDF file for molecular docking?

What program or server, can i utilized for construct a peptide for molecular docking in silico? the output must be in SDF file.

06 July 2018 2,429 6 View

What is the best server or software to design peptides to perform docking?

What is the best server or software to design peptides to perform docking? I refer acuracity terms.

05 June 2018 7,330 3 View

How to analyze a particular region of my simulation box in GROMACS?

Hi, I am using GROMACS 5.1.4 to simulate water in contact with a surface. I am only interested to calculate some properties of water near the surface. Let's say at a distance of x nm from the...

03 March 2021 9,989 2 View

How to get onecolumn document from standard IEEE ACCESS LateX template?

I have prepared a manuscript in IEEE Latex template, but for some purpose, I need to prepare a word file as well (detailed format is not required). Compared to two column .tex file, one column...

02 March 2021 1,830 3 View

How can the modification of garden soil cause global warming?

Hello, I am working on a soil project and I found a primary research article that tests how the modification of agricultural soil can cause global warming, using a thermal collector, however I...

02 March 2021 7,161 3 View

Does anyone know how to plot my station to a section plot on Ocean Data View (ODV)?

I made a vertical section plot with WOA .nc file on ODV, and now I want to plot my stations (csv. file) in it. Does anyone know how to import my points to the section? They are two different...

01 March 2021 3,610 1 View

Does anyone know to clarify these changes?

01 March 2021 1,290 2 View

How to classify strictly upper triangular matrices by similarity?

Let F be a field. Consider U, the set of n times n strictly upper triangular matrices in F. For X, Y in U, we call them similar if there exists some S, which is non-degenerate and upper...

01 March 2021 2,957 8 View

Is CD44 degraded in lysosome together with hyaluronan after CD44 mediated endocytosis of hyaluronic acid?

Also when RHAMM binds hyaluronic acid, they get internalized, will RHAMM also be degraded? Or both CD44 and RHAMM will be transferred back to the cell membrane? Asking for breast cancer cell line...

01 March 2021 8,169 2 View

Why is the sum of the elements in a row in a Q matrix equal to zero?

When explaining substitution models, the substitutions are expressed as Q matrix. Why is the sum of the elements in a row zero?

28 February 2021 3,864 3 View

Distribution of particles in metal matrix?

How would define the "good" and "poor" distribution of particles within the matrix. Is there a quantitative solution to assess the distribution of the particles, which then having denotation of...

28 February 2021 7,397 8 View

How to find a correlation between coordinates in a curvilinear coordinate system?

Hello. I have a skewed elliptical coordinate system (I use alternative elliptical coordinates). And I need to determine connections between coordinates in order to fetch a covariance matrix of...

28 February 2021 364 3 View