Have anyone worked on Transposeq tool?

I am working on Transposeq tool. Any help is much appreciated. http://www.broadinstitute.org/cancer/cga/transposeq

01 February 2015 261 1 View

Phylogenetic analysis of the gain/loss of genes along different species lineages?

To identify the gain/loss of genes in a set of species? For example, I am interested in identifying the list of tRNA genes which are gained or lost among different strains of bacterial species or...

05 June 2013 5,629 4 View

How do I find shine dalgarno sequences for prokaryotes?

Is there any tool to identify it or Is there any database with relevant information on it?

02 March 2013 3,099 30 View

I am interested in collecting the physiological pH values for Prokaryotes (e.g. bacteria).

For example, some bacteria that thrive in extreme salt water environment will have different pH from other bacterial species in other environments. Is there any database available with these values?

01 February 2013 3,343 0 View

How to find early and late proteins in any species?

Do early proteins represent highly expressed proteins and late proteins represent lowly expressed proteins? Am I correct? Is there any reliable source? On what basis the proteins are decided that...

31 December 2012 4,125 1 View

How to carry out chi square test for this data

I am trying to find, is there is any statistical difference between these two sample groups of data. For example, GCC(A) codon is highly over used in group1 compared to group2. How to get p...

10 November 2012 4,535 6 View

How to find the over used codon from each codon family (2-fold,3-fold and 4-fold) for 10 different strains? I use SAS tool.

10 November 2012 6,333 0 View

What software can I use to do statistical analysis for correspondence analysis?

Correspondence analysis (Multi variate analysis) Currently I am planning to learn correspondence analysis (CA) for my research work. Can anybody teach me how to perform CA and mainly how to...

07 August 2012 1,134 12 View

Temperature data for all bacteria?

Is there any database or research team working on developing a database of all temperature-related data for all types of bacteria?

07 August 2012 6,259 18 View

Is there any database to get the highly expressed and poorly expressed genes?

For any species?

05 June 2012 9,604 4 View

error in running a model in Abaqus

Excessive rotation of nodes in node set ErrNodeExcessRotation-Step1

17 August 2021 0 0 View

error in modelling model in Abaqus

Excessive rotation of nodes in node set ErrNodeExcessRotation-Step1

17 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

MD MOE RMSD

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

07 August 2021 0 0 View

MGL tools

20 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

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

i have some problem with chtMultiRegionSimpleFoam

--> FOAM FATAL ERROR: Maximum number of iterations exceeded From function Foam::scalar Foam::species::thermo::T(Foam::scalar, Foam::scalar, Foam::scalar, Foam::scalar (Foam::species::thermo::*)(Foam::scalar, Foam::scalar) const, Foam::scalar (Foam::species::thermo::*)(Foam::scalar, Foam::scalar) const, Foam::scalar (Foam::species::thermo::*)(Foam::scalar) const) const [with Thermo = Foam::hConstThermo >; Type = Foam::sensibleEnthalpy; Foam::scalar = double; Foam::species::thermo = Foam::species::thermo >, Foam::sensibleEnthalpy>] in file /home/ubuntu/OpenFOAM/OpenFOAM-4.1/src/thermophysicalModels/specie/lnInclude/thermoI.H at line 66. FOAM aborting #0 Foam::error::printStack(Foam::Ostream&) at ??:? #1 Foam::error::abort() at ??:? #2 Foam::heRhoThermo >, Foam::sensibleEnthalpy> > > >::calculate() at ??:? #3 Foam::heRhoThermo >, Foam::sensibleEnthalpy> > > >::correct() at ??:? #4 ? at ??:? #5 __libc_start_main in "/lib/x86_64-linux-gnu/libc.so.6" #6 ? at ??:?

24 March 2021 0 0 View