Analysis of 3d image data as 2d?

I have a tif image of size around ~10 Gb. I need to perform object classification or pixel classification in this image. The dimension of image data has zyx form. My voxel size in x=0.6, y=0.6 and...

31 December 2018 8,968 8 View

What is the difference between Langevin and Nose hoover thermostat?

Dear all, I am using LAMMPS for coarse grain simulation of polymer chains. I want to control the temperature of the chains using thermostat. Which one should I chose? fit nvt or fix langevin...

08 September 2018 551 3 View

What is live FISH?

Hi, What is live Fluorescent In-situ hybridization imaging method? and how it is done?

01 February 2018 7,109 1 View

What is enhancer RNAs?

Hi, Nowadays, there are so many RNA detected so it is difficult to keep track of all the RNAs. Recently, I read about enhancer RNA that it is part of noncoding trancripts. I also read about...

31 December 2017 2,466 4 View

How to deform sphere region in LAMMPS?

Hi, Is there any way to deform the shape of spherical region in LAMMPS. If i am right then fix deform command only used for to deform the simulation box. Is anyone know how to deform the...

02 March 2017 3,247 0 View

Voronoi tesselation in 3d ?

09 October 2016 8,676 1 View

Difference between long poly A+ RNA and total RNA ?

RNA-seq data in ENCODE are available in these localization: cell, cytosol, nucleus etc. Is that means (cell localization = cytosol + nucleus) The main rna extraction methods are long poly A+, long...

06 July 2015 8,287 3 View

Next Gen Sequencing, Software, bioinformatics tools?

I found a nice review about current big data of biology and tools. So, I would recommend to read this paper by everyone "Computational solutions for omics data" who are working in Computational...

05 June 2015 5,074 0 View

Question related to transcripts, exons and splicing?

Can anyone explain me the difference between exons and transcripts and is this true that coding sequence (CDS) are the exons. Another question about the splicing suppose if you have E1, E2 and E3...

05 June 2015 7,557 5 View

What kind of questions can be asked from the tissue images of various staining?

Hi, I am completely new to experimental techniques. What kind of questions can be answered if we have the images of different staining for example: GFP, EDU, DAPI, LAMIN etc.? Can we measure the...

01 January 1970 6,144 2 View

MD MOE RMSD

How to calculate the RMSD values for a MD simulation using MOE?

07 August 2021 0 0 View

MD MOE RMSD

How to calculate the RMSD values for a MD simulation using MOE?

07 August 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

What kind of fluid could I use for a pitfall trap that also does not invalidate molecular testing?

Hi, I want to start testing pitfall trap to obtain ants samples, but I need to conduct molecular analysis on those insects. So, what kind of fluid can I use? Ethanol expires too early and I need...

03 March 2021 5,978 5 View

No title

02 March 2021 3,060 3 View

How to repeat an operation on an atom selection for multiple times in PyMol?

Hi, I am trying to construct a multi-layer fibril structure from a single layer in PyMol by translating the layer along the fibril axis. For now, I am able to use the Translate command in PyMol...

02 March 2021 4,569 4 View

New Journal, "Integrative Psychological and Behavioral Science" -- do you not know, and have you not seen, this done before?

Question to you and THEM, the New Journal, "Integrative Psychological and Behavioral Science" -- do you not know, and have you not seen, this done before? There appears to be a core problem for...

02 March 2021 3,024 2 View