Are transcripts with class code X could possibly be the anti-sense RNA transcripts?

We prepared un-stranded RNA-Seq library (SMART-Seq2) and sequenced in Illumina platform. We mapped with STAR (by adding XS tag) and assembled using cufflinks RABT assembly. Now after comparing...

11 December 2018 2,352 1 View

Can anyone give me an ideas to build a database with functionality?

Currently I am designing a gene expression database in MySQL. Additionally I want give an web interface to the database, which is primarily for our lab use. And also I want to include some...

05 June 2018 6,305 2 View

What are the essential SNP filtering criteria one should follow before performing GWAS analysis?

We are working on a project where we need to perform genome wide association studies for multi-parental population. We have the SNP data from whole genome re-sequencing protocol. As I am quite...

09 October 2017 448 9 View

What are the considerations for choosing a statistical model to perform association studies?

07 August 2017 4,004 5 View

How to analyze BCFTools RoH output? How to provide information of in-house alternate allele frequency?

10 November 2016 571 1 View

Can anybody help me in understanding one variant reported in 1000Genomes phase three release?

11 December 2014 3,740 5 View

Is there any freely available tool to predict network from vcf file?

Rare complex disorders believed to be caused by combinatorial effect of many genes. Our lab works on one such disease. We are done with WES of four affected members from such a family. We are now...

07 August 2014 8,736 4 View

What if anyone removes all the unknown (or confusing) contigs from the reference genome (eg hg19) before alignment and other consecutive tasks?

There are a good number of contigs in the hg19 release. The coordinates of this contigs are a bit confusing. Now if anybody want to keep these contigs out of reference before doing alignment, what...

01 February 2014 7,190 3 View

Which variant caller researchers are using frequently?

I am developing/refining a pipeline for exome data. According to reported articles there are mainly two callers I found out to be more acceptable among researchers: One is SAMTools' variant caller...

10 November 2013 782 5 View

Is there any repositories where I can find a vcf file for dbSNP release 131?

I am looking for a vcf file of dbSNP release 131. Can anyone provide me with a link holding the data? Or is it possible to convert dbSNP flat files to vcf format by using any tool?

10 November 2013 7,781 7 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