Questions tagged [phonopy]

Tag this when using the phonopy package for phonon calculations at harmonic and quasi-harmonic levels.

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Comparing phonon dispersions generated with phonopy to those generated with Quantum Espresso

I've generated a phonon dispersion for BCC lithium using the python api for phonopy. I specified the following q-point path ...
A quarky name's user avatar
4 votes
1 answer
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Why dipole correction does not work in VASP DFPT + phonopy calculation for a stable 2D material

Seems that DFPT method in VASP has many defects. It can't include vdw interaction. Now I found it also can't include dipole correction, which leads to a large negative frequency at $\Gamma$ point. I ...
mollen's user avatar
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How can we calculate transverse and longitudinal optical phonon frequencies

Could you please help me to calculate the "transverse and longitudinal optical phonon frequencies" from phonopy+vasp output files? These parameters will help me to calculate the high-...
rekha's user avatar
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Getting the Phonon Dispersion Using fix phonon in LAMMPS

I am using fix phonon in LAMMPS to get the phonon dispersion relation, but this requires a post-processing code that takes the generated binary file and produces ...
Mohamed's user avatar
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3 votes
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How to calculate the lattice parameter of a supercell using Phonopy? (For Quantum ESPRESSO)

I found in the internet a method to generate a supercell from the input file using Phonopy code. And I have a question if someone can clarify my doubts please. The method is as following: We make an ...
Camilla's user avatar
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4 votes
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An issue of running Phonopy for graphene using Siesta [closed]

I have used Siesta in the example attached with phonopy to run phonon for graphene, and when I typed the command to create force ...
Omar Alrawi's user avatar
2 votes
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Phonon Angular Momentum

Can anyone help me understand what is Phonon Angular Momentum? How does it affect thermal properties? Any relevant books and papers are welcome, if you have suggestions.
epsilon02fft's user avatar
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5 votes
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k-path for phonon band structure

I have observed in research papers that the k-path chosen for electronic band structure and for phonon band structure to be different. I am currently using VASPKIT in order to obtain the path for ...
Parmeet Singh EP 066's user avatar
2 votes
0 answers
78 views

How to determine the TA/LA by phonopy [closed]

I would like to ask how to use PHONOPY to define which band is LO, TO or ...
Hu Chenhui's user avatar
5 votes
1 answer
85 views

Phonon branch-resolved harmonic sampling

I would like to do a phonon band-resolved harmonic sampling, following the recipes from the paper by West and Estreicher (harmonic sampling). In fact, the method presented in the paper is already ...
Nikita Rybin's user avatar
3 votes
0 answers
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Interpreting Phonon calculations for 2D materials [closed]

What is the meaning of phonon calculation in 2D materials? And is it enough to predict the stability of materials based on positive phonon only?
Maulesh VALA's user avatar
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can anyone please explain what is meaning of band.conf , mesh.conf and pdos.conf in phonon calculation? [closed]

Can anyone please explain, what is the physical meaning of band.conf, mesh.conf and pdos.conf in phonon calculation? if it is possible please explain about tags used in it.
Maulesh VALA's user avatar
10 votes
1 answer
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Tools to Visualize Phonons

Software such as ChemCraft or GaussView is easy to find for vibrational calculations in gas phase, but I am finding it much more difficult to find good visualization software for phonons. I have ...
Tristan Maxson's user avatar
7 votes
1 answer
844 views

How to solve this Phonopy-related problem?

I have used the finite displacements method for phonon spectrum calculation, and when I typed the command to create force sets: ...
Chi Kou's user avatar
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7 votes
1 answer
493 views

Which IBRION tag should be used for finite displacement method in calculating Phonons spectrum?

I am planning to use the finite displacement method for calculating phonon spectrum, and I have prepared the INCAR file below to try it on a transition metal trihalide monolayer (e.g., VI$_3$). I ...
Chi Kou's user avatar
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6 votes
1 answer
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Lattice Thermal conductivity calculation error

I have been trying to calculate Lattice Thermal Conductivity on my system using QuantumEspresso. I used phonopy and phono3py. I was successful to run these codes on Si system for practice. Now when I ...
epsilon02fft's user avatar
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What is the minimum supercell size for phonon spectrum calculation for this monolayer system? [closed]

Following the previous threads on this topic, I would like to know the minimum supercell size suitable for Phonon spectrum calculation using Phonopy (DFPT) for CrI$_3$ monolayer system given by this ...
Chi Kou's user avatar
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6 votes
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How can I find primitive axis for any bulk or 2D (monolayer) material [closed]

I am doing DFPT calculations using VASP+Phonopy. To plot phonon band structure, I need a band.conf file in which we need to ...
astha's user avatar
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4 votes
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How to correct units in the band.yaml file of QE, to band.yaml of VASP [closed]

I see from the phonopy web page 1 that the physical unit systems used for the calculators are different for different codes 1. On the same page, it is mentioned that "For these sets of physical ...
kcb's user avatar
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9 votes
2 answers
848 views

Calculating lattice thermal conductivity using Quantum ESPRESSO and phonopy

How should I calculate lattice thermal conductivity in Quantum ESPRESSO? I have installed phonopy. My Linux distribution is Ubuntu.
epsilon02fft's user avatar
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8 votes
1 answer
552 views

Calculation of linear coefficient of thermal expansion using VASP-Phonopy for Hexagonal material

We use quasi-harmonic approximation using VASP-Phonopy. In whole calculation we only assume Free energy as function of volume but in case of HCP material which have ...
Pranav kumar's user avatar
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8 votes
1 answer
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Phonon frequencies and free energy with respect to polymorphs

I have a material that can crystallize in either a cubic or tetragonal polymorph depending on the synthesis. I used DFPT in VASP and calculated the phonon band structures. I see that the cubic has all ...
DoubleKx's user avatar
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7 votes
1 answer
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Can we translate vibrational frequencies at q-points to vibrational frequencies of atoms?

Lattice dynamics codes like phonopy output vibrational frequencies at q-points. Can we get data of vibrational frequencies for each of the atoms in the supercell? (...
Hitanshu Sachania's user avatar
10 votes
2 answers
477 views

Temperature effect on elastic constant using VASP

I want to incorporate the temperature effect on elastic constant (EC) of a system using VASP. From literature, there are two ways which can be used to get the temperature effect on EC i) ab initio ...
Niraja moharana's user avatar
11 votes
1 answer
181 views

Reliability about the predicted two-dimensional crystal structures based on DFT high-throughput calculation?

Computational 2D Materials Database (C2DB), 2D structures and layered materials, and 2D Materials Encyclopedia are three major databases for two-dimensional materials based on DFT calculation. However,...
Jack's user avatar
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10 votes
1 answer
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How to determine LA/TA, ZA/ZO and LO/TO by PHONOPY

I would like to ask how to use PHONOPY to define which band is LO, TO or LA, TA, or ZO or ZA. I attach a picture from https://iopscience.iop.org/article/10.1088/0953-8984/28/10/103005
Binh Thien's user avatar
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11 votes
1 answer
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Why do we need to build a supercell to use the DFPT in Phonopy interfaced with VASP?

The following passage about the merits of density-functional perturbation theory (DFPT) is extracted from this seminal paper: Phonons and related crystal properties from density-functional ...
Jack's user avatar
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10 votes
0 answers
246 views

Phonon density of states as a function of frequency vs energy [closed]

Lattice dynamics codes like Phonopy output density of states, $g_{(\omega)}$, as a function of frequency. Since $\int g_{(\omega)}d\omega$ is the number of states ...
Hitanshu Sachania's user avatar
13 votes
1 answer
183 views

Phonon density of states in statistical thermodynamics

Phonon density of states (DoS), $g_{(\omega_i)}$, help understand the distribution of states across frequencies of vibration. $\int g_{(\omega_i)}d\omega_i =$ the number of states between $\omega_i$ ...
Hitanshu Sachania's user avatar
19 votes
1 answer
4k views

What do negative phonon frequencies signify?

Negative frequencies "in general" mean the direction of displacement is reverse to that in positive frequencies. Does it mean two frequencies with opposite signs but the same magnitude give ...
Hitanshu Sachania's user avatar
5 votes
1 answer
923 views

Best practice(s) for q-points convergence in phonon density of states calculations

The answer can be a complete description of all the things we must be attentive to while converging q-points. A peculiar thing that I feel contradicted about: Generally, we don't take an equal # of k-...
Hitanshu Sachania's user avatar
8 votes
1 answer
526 views

Should all q-points in the first Brillouin zone be sampled in phonon density of states calculations?

For electronic density of states (DoS) calculations with VASP, it is recommended that VASP's internal symmetry routine is turned ...
Hitanshu Sachania's user avatar
9 votes
2 answers
543 views

"Input forces are not enough to calculate force constants" Phonopy error?

I am doing a phonon calculation for a phase using a 2x2x1 supercell (after geometry optimization of the structure). I am getting an error when computing the DOS and band structure after computing the ...
Niraja moharana's user avatar
29 votes
3 answers
3k views

How big should a supercell be in phonon calculations?

Is 2x2x2 enough, or is larger needed? I know that a convergence test must be carried out, but increasing supercell size enormously increases computational time, and I am using the Python program ...
Alfred's user avatar
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13 votes
2 answers
333 views

Can we do anything to reduce the number of displacements in a frozen phonon lattice dynamics study?

I realize that the more ordered the supercell is, the lower the number of displacements. Perhaps, we could say the same with respect to symmetry. Is there anything that can be done to reduce the ...
Hitanshu Sachania's user avatar
19 votes
1 answer
627 views

What do phonon dispersion (or lattice dynamics) studies include?

I use the codes phonopy and phonopy-qha for phonon dispersion studies. phonopy-qha gives ...
Hitanshu Sachania's user avatar
19 votes
1 answer
2k views

Are there differences in accuracy and reliability between the frozen phonon method and Density Functional Perturbation Theory?

When proposing or predicting new materials, whether in the bulk or in two dimensions, it is important to discuss the stability of the system. This is usually done through thermodynamics and(or) ...
epalos's user avatar
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