User: mah19

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mah190
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Posts by mah19

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Run Defuse gene fusion detection software with mm10 RNA-Seq
... Hello, I am trying to run defuse to detect gene fusion in mouse RNA-Seq data. Anyone has an idea of how to adjust the config.txt file to run with the proper mus_musculus references? The defuse_run.pl file as well seems to be hard coded to get Homo-sapiens reference files from Ensembl website. Thank ...
defuse rna-seq gene_fusion written 6 months ago by mah190
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Comment: C: Visualizing Transcriptional Structural variants in bedpe format
... Hello Hussain, Thank you for your reply. Unless I m doing something wrong IGV will only show you one section of the variant at as it aligns to its location on the genome. I am interested to see how TSVs connect different genomic regions together in a graphical manner. Thanks ...
written 10 months ago by mah190
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Visualizing Transcriptional Structural variants in bedpe format
... Hello, I have generated transcription structural variant files from RNA-Seq data in Bedpe format by running chimeric Bam files with SQUID. Is there a way to visualize these files and locate the variants on their relevant positions on the reference genome, ie some tool that can show the variants a ...
tsv written 10 months ago by mah190 • updated 10 months ago by Hussain Ather880

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