Mohamed Neji

10 Questions 9 Answers 0 Followers

Questions related from Mohamed Neji

Package to combine GO terms to Heatmap of DEGs?

Hi all, Could anybody recommend for me a package or another tool that allow to combine GO terms to Heatmap of DEGs extracted from RNAseq data? Thanks

09 September 2017 7,288 0 View

RNA-seq and Differentially expressed genes?

I was wondering if someone could recommend the best tool for DEGs analysis? I already used the R package edgeR. Is there any difference between edgeR and DEGseq? Thanks,

06 June 2017 527 4 View

Samtools and BCFtools for SNP calling?

Hi all, After sorting my Bam file using Samtools, I tried to use samtools mpileup and bcftools commands for SNP calling. However, I got the following error: [E::cg] unknown type Does anybody could...

04 April 2017 1,498 2 View

Trinity, Transcriptome assembly. ./runMe.sh: line 18: ../../Trinity: Permission denied?

I am running Trinity for my transcriptome assembly using the Cluster of our University. I got the the following error: ./runMe.sh: line 18: ../../Trinity: Permission denied. Any one could suggest...

01 January 2017 4,557 3 View

Does any one could suggest for me usefull programs for full-length transcriptome assembly from RNA-Seq data without a reference genome?

Full-length transcriptome assembly from RNA-Seq data without a reference genome

10 October 2016 8,582 2 View

Hi all, Can anyone recommend for me an effective method/protocol for preserving the expression of Plant RNA in situ?

protocol for preserving RNA expression in situ

09 September 2016 5,429 1 View

Can anyone tell me if there is an R package useful for extracting data from the rasters of the bioclimatic variables available in WorldClim database?

R package, Raster, WorldClim database

01 January 2016 1,525 2 View

Does anyone familiar with Cornell condensed format? Convert .txt / . xls files to Cornell condensed file?

Hi,I am trying to use some softwares that require the Cornell condensed format as input! So I need to convert my data from .xls or .txt to Cornell condensed file. There some commercial...

10 October 2015 4,704 1 View

Are there GIS tools for simulating landscape fragmentation that are compatible with QGIS?

I know Patch analyst but it seems compatible only with ArcGis? GIS tools-landscape fragmentation

03 March 2015 1,241 9 View

Does anyone have a protocol for karyotyping or determination of ploidy level of plants by using genomic DNA?

03 March 2013 963 1 View