Does any one can help to calculate viscosity using molecular dynamics. I am doing the NAMD SIMULATION using amber force field?

25 September 2020 1 7K Report

My system consists of ionic liquids, aliphatic and aromatic hydrocarbons. Any suggestions and any script for calculation of viscosity?

Aashish Bhatt

http://lennardjones.com/blogs/pr/viscosity.html

Badges
Science topic

More Nikhil Kumar's questions See All

What is the relationship between the threshold voltage and the device's noise performance, particularly in terms of flicker noise and thermal noise?

The threshold voltage (Vth) of a MOS device plays a crucial role for its operation. At the same time, noise is an intrinsic factor. So how noise (flicker or thermal) change with the change in...

29 July 2024 3,246 0 View

What is the solvent system required to run tlc for calixarenes?

If you don't understand my question let me know

21 July 2024 563 1 View

Sample size for qualitative study?

I am working on scale development in behavioral finance by undertaking a mixed-method approach using the exploratory sequential design. The phenomenon has diverse meanings in existing literature...

20 July 2024 9,153 11 View

How to convert available phosphorus to total phosphorus?

I need to convert Available phosphorus into total phosphorus

18 July 2024 6,799 3 View

Can it is possible to find the cleaved sequence when a protein cleaved by a heamaglutanin protease (HA/P) by any bioinformatics tools?

Bioinformatics tools like peptide cutter

15 July 2024 6,453 1 View

Can we progress towards defining obesity based on body fat content?

The burden of obesity is enormous. The greater challenge lies in accurately diagnosing obesity at the right time, reflecting the true increase in visceral fat. BMI may not accurately represent...

14 July 2024 8,771 4 View

How can I extract glycosides from mangrove leaf samples without an incubator that can reach temperatures above 60°C?

I want to extract glycosides from my mangrove leaf samples, but my laboratory lacks an incubator capable of reaching temperatures above 60°C. The paper I am following specifies a minimum...

13 July 2024 3,686 0 View

How does high humidity affect the growth and development of crops?

10 July 2024 7,258 20 View

In what ways does high humidity impact the pollination process in agricultural plants?

10 July 2024 7,513 13 View

Do the parts of the body that are situated at a longer distance from the central nervous system have the least control & coordination comparatively?

What would be the effect of distance from CNC cum Heart on the structure and function of a particular part of the human body? Do short people have evolutionary advantages to control body parts in...

09 July 2024 2,052 3 View

Ethylene glycol is newtonian or non newtonian fluid?

Some sources say it is treated as Newtonian as ethylene glycol has a higher viscosity than water, which affects the flow characteristics in simulations. But some also say it is non-Newtonian.

09 August 2024 2,111 2 View

Gromacs first step of minimization ?

I have face this problem anyone help me how to solve this issue ?which is below Fatal error: There are inconsistent shifts over periodic boundaries in a molecule type consisting of 78 atoms. The...

07 August 2024 2,598 1 View

What is the solvent for 8YSZ nano material?

I need to do some experiment with it in liquid form.

07 August 2024 613 3 View

Hi, please what is the best tool on Aspen plus that can help me get the best inlet temperature and pressure for cryogenic distillation?

I am trying to recover liquid CO2 from a mixture of 0.6 CO2, 0.3 N2, and 0.1 O2. My aim is to recover about 99% liquid CO2 at the bottom of the column and make sure the amount of gaseous CO2...

06 August 2024 4,611 0 View

How much Yeast should we add to fermentation media?

I have prepared a liquid broth containing Yeast (S. Cerevisiae) that i need to add from it to fermentation media of lignocellulosic hydrolysate. I need to know based on what parameters do we add...

06 August 2024 662 1 View

How to Add Missing Water Molecules in Protein-Membrane Simulations?

I have protein-membrane simulations (PDB, PSF, DCD) and have noticed that water molecules near the protein are not visible in the simulations. How can I fix this issue? Is there a way to place the...

04 August 2024 1,200 2 View

What is the best protocol for freezing the rat brain in preparation for protein detection by Elisa ?

What is the best way to freeze the rat brain - liquid nitrogen, Dry ice , isopentane - after isolation for later protein investigation by Elisa?

01 August 2024 1,722 1 View

How to restart MD without using checkpint file in GROMACS?

Dear All Gromacs User I would like to restart MD without using checkpint .cpt files? I heard there is a way for acheiveing this. Any input and sugegstions are most welcome. Thanking You Budheswar

29 July 2024 3,084 8 View

How to prepare a molecule for molecular dynamics calculations?

If I want to calculate molecular dynamics (Gromacs), do I first need to optimize the geometry of the molecule? For example, I first draw the molecule in Avogadro, and then what? I guess I can't...

28 July 2024 673 3 View

How to add viscosity into a hyperelastic material such as Mooney-Rivlin rubber in LS-DYNA?

Hi, I am working on a head FE model and want to try different material types on brain. I read some papers that use Mooney-Rivlin rubber model and wondering if i can add viscosity into it. Is it...

24 July 2024 5,908 0 View