User: erincyurtman

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Posts by erincyurtman

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Comment: C: Creating intergenic bam file
... Sorry for late answer. Should I remove .bam file from folder? ...
written 4.4 years ago by erincyurtman0
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Comment: C: Creating intergenic bam file
... Yes i already indexed my bam file. ...
written 4.4 years ago by erincyurtman0
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Comment: C: Creating intergenic bam file
... [bam_index_load] fail to load BAM index. [bam_idxstats] fail to load the index. that is error that i received everytime i try your code with my bam file :( I also tried to create my own genome file from chrom.size link in UCSC however it gives every time same error with different chromosome numbe ...
written 4.4 years ago by erincyurtman0
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Comment: C: Creating intergenic bam file
... It is zebrafish genome. ...
written 4.4 years ago by erincyurtman0
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Comment: C: Creating intergenic bam file
... Thank you very much for your answer but I am very new for bedtools so i would like to ask about genome file. How can I get this genome file ? ...
written 4.4 years ago by erincyurtman0
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Creating intergenic bam file
... Hi everyone, I am just trying to create a bam file that contains only intergenic regions of genome. I have complete genome bam file but i couldn't find out any filtering way for this purpose. Do you have any suggestions about it ? ...
genome R alignment intergenic written 4.4 years ago by erincyurtman0
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Removing CDS from my bam file plot
... Hello everyone, I just plotted my bam file by using GenomeAxisTrack(),IdeogramTrack(),GeneRegionTrack() and DataTrack() functions in R. However I cannot find out the way which I can remove all the coding regions from my plot. I want to focus on parts that are not included in coded regions for mRNA ...
R written 4.5 years ago by erincyurtman0

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