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• UCSC gene names
  I have uploaded a database of genes from the UCSC genome browser (Hg38) to Galaxy, to identify th...
• How to convert gencode ID into ENSEMBL ID
  Hi, I have gene Id derived from gencode and I am trying to convert into gene names, but i think I...
• How to covnvert gene id to gene names
  Hi, I have been using Tophat, cufflink, cuffmerge and cuffdiff to analyse RNA seq data. I hav...
• VCF gene name sorting
  Hello, I have a vcf file and need to tie it to the gene name. I did this with the vcf annotate t...
• How do I obtain gene names from ENSG values?
  Hi I have performed DGE using DESEQ2 (input htseq-count, following mapping by BWA-MEM) and have ...
• Compare two datasets issue
  Hi, I'm trying to use the compare datasets tool and can't get it to work. My first file was upl...
• Finding gene names from TopHat results.
  Hello, I am trying a build a workflow for RNA-Seq analysis and I want to verify my methods via co...
• gene Id to gene name
  I did DEseq2 on galaxy for my samples after STAR alignment. I got the report and found the first...
• rearrange columns with Galaxy
  Hello, I have the following GFF file: ##gff-version 3 #!gff-spec-version 1.21 #!processor ...
• problem with cuffdiff result
  Hi, there is a problem with my cuffdiff data. There is no gene name in the test with value; whil...
• Getting species/taxa from GIs
  Hi there, I'm using megablast to find out whether my RNAseq data might contain contamination from...
• Batch conversion of ID to gene symbol
  I'm an old school molecular biologist who studies gene expression but is quite new to bio-computi...
• how to get gene name in varinat anlysis results
  hellow sir/ madum i got vcf file ofter running freebayes ,i got position of the gene actully i ne...
• How To Replace Ensembl Gene Id With Gene Names In Cuffdiff Output?
  Hi all, I had the following Cuffdiff output from genes defferetial expression testing: test_id ...
• Get Gene Name From Cuffdiff'S Output?
  Hi guys, I am trying to examine gene differential expression in my mouse samples using : Cufflink...
• what does unavailable mean?
  Hi, I am trying to use the "Extract Genomic DNA" tool however it needs TAB delimited so I am try...
• converty cuff id to gene id
  Hi, wondering if anyone could give me some clues how to convert cuff gene id to normal gene id so...
• gene Symbol from cuffdiff output
  Hi. I received output from cuffdiff which included gene_id, gene and locus for each differential...
• Gff3 And Metagenome Data?
  Hi all, has anybody an idea how to do the following in galaxy? I have short (400bp) metagenome r...
• Bed To Gff
  Dear Galaxy I have a problem converting Interval to GFF. I used the tool BED-to- GFFconverter. ...
• RNA-seq : problem with gene ID
  Hi all, It's the first time for me on galaxy and I have some problem. After the Deseq2 analyse...
• Cufflinks: reference annotation file for Nile Tilapia (Oreochromis_niloticus)
  I want to do differential gene expression analysis on some Nile Tilapia RNA-Seq data using the Cu...
• gene names and gene ids
  hi i have a annotate file of vcf using vcf annotate and in my out i dont have any gene ids thier...