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Data from servers Accessible on IGV
Hello, I have some questions about the server data accessible through IGV
1. When you upload files from the server "Body Map 2.0 (Illumina HiSeq) are these files RNAseq files? I tried to look up this information in the user guide as well as just by googling "Ilummina HiSeq" but I cannot find any definitive answers.
2. Are the "counts" the grey vector looking bars - so if I put in my coordinates for the "region of interest" are the vector like bars the alignments of the coordinate sequence with with sequencing data from the server?
3. There is also a server for data from TCGA. When I uploaded files from there, it comes as a heatmap visualization. I am not sure what kind of data this is. I would like to also plug in coordinates for a gene isoform and find expression levels in various cancer tissues. The labeling is also unclear, for instance I am not sure what "OV - TR" OR "OV - TP" means. I realize that data from TCGA is clinical and that there are cohorts and studies on multiple patients, it makes it difficult for me to understand how to utilize the information. I was wondering if anyone knew if there was maybe RNAseq of cancer tissues on this server?
1. When you upload files from the server "Body Map 2.0 (Illumina HiSeq) are these files RNAseq files? I tried to look up this information in the user guide as well as just by googling "Ilummina HiSeq" but I cannot find any definitive answers.
2. Are the "counts" the grey vector looking bars - so if I put in my coordinates for the "region of interest" are the vector like bars the alignments of the coordinate sequence with with sequencing data from the server?
3. There is also a server for data from TCGA. When I uploaded files from there, it comes as a heatmap visualization. I am not sure what kind of data this is. I would like to also plug in coordinates for a gene isoform and find expression levels in various cancer tissues. The labeling is also unclear, for instance I am not sure what "OV - TR" OR "OV - TP" means. I realize that data from TCGA is clinical and that there are cohorts and studies on multiple patients, it makes it difficult for me to understand how to utilize the information. I was wondering if anyone knew if there was maybe RNAseq of cancer tissues on this server?
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