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• Put header to bigwig file
  Hello, I am working with ChIPseq with Histone marks on chicken (Gal/Gal4). I generated a bigwig ...
• Questions Regarding Circster Visualization
  Hi, I just noticed that Circos plots are now incorporated into Galaxy's visualization methods wh...
• Volcano Plot help code
  Good Morning, I'm sorry to disturb, but as anyone done these volcano plot? I'm only able to do th...
• Normalization when convert bam to wig
  Hello, I am new to the bioinformatics analysis, I want to display bam coverage in IGV to show the...
• Convert BAM into bigwig for chicken
  Hi, I used functions of “Create a BedGraph of genome coverage” and “Wig/BedGraph-to-bigWig” in G...
• how to combine individual chromosomal wig files into 1 bigwig file.
  I am using Galaxy on a PC.  My peak calling software is a PC based program built into DNAstar.  U...
• Color in a bedgraph / bigwig
  Hi all, I'm doing ChIPseq with the galaxy main server using Bowtie2 & MACS2. I then transfor...
• Need help with Circos plotting of snps on Galaxy
  Please help me to make a Circos plot of snps against the reference genome on Galaxy. I have a bed...
• ChIPseq vs RNAseq comparison
  Hello, I have a number of RNAseq bigwigs and ChIPseq bigwigs and would like to compare overall h...
• Bam to BigWig conversion fail
  I tried converting my sorted bam files to bigwig (my build is mm10) and got this error: 1 is ...
• Volcano plot from Tool Shed?
  Hi, I'm interested in making a volcanoplot, scatterplots for differential expression (for example...
• Mapping quality plot of BAM file
  I'm interested in a specific genome region, is there a way/tool to make trackster track/plot/hist...
• Overlapping axis labels when graphing quality score box plot
  Hello~ Small SOS. I'm trying to graph the quality box plot and the nucleotide distribution chart...
• Help with LEfSe
  I'm using the LEfSe algorithm, however I have some difficulties. How come I succeeded line C (pl...
• No module named Gnuplot
  Hi, I'm trying to generate a chart using "**Bar chart** for multiple columns" but it gives me err...
• BAM to FPKM bigwig file
  Hi, I am new to RNA seq analysis.I am wondering if some one help me with the conversion of .BAM ...
• Wig/BedGraph-to-bigWig fails with "hashMustFindVal: '1' not found Error running wigToBigWig."
  Hi, I have a very large, merged BAM file which I successfully converted to a bedgraph using the ...
• Galaxy cummeRbund fails to identify sample name for X and Y axis for scatter and volcano plot
  Hello, I have cuff diff sqlite db for 2 samples and I wish to visualise the result using galaxy-c...
• Error of wig/BedGraph-to-bigWig converter
  Hi, I have a ChIP-Seq BAM file aligned on the chicken galGal3 reference genome using Bowtie2. I ...
• Bam file can not convert into bigwig
  Hello, I got a bam file and upload to the Galaxy.  When I convert it into bigwig, it gives me th...
• Which Concatenate tool help with an error in wig to BigWig conversion
  Hi there, I am not sure which concatenate tool to use to combine individual chromosome wig files...