User: milk841103

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milk84110310
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Posts by milk841103

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Comment: C: Finding gene density from reference genome using R
... hey, sorry to bother you again but i'm having problems when looking for genes that fall into each bin. to take a step further from finding genes in each bin, I was also trying to find genes with copy number variations(CNV) in each bin. I have already have a list of genes (with chromosome names, star ...
written 3.5 years ago by milk84110310
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Comment: C: problems in deviding genome to non-overlapping bins and count genes
... thank you for your answer! do you mind telling me how should I adjust coordinates? and also could this 1-off error make such huge defference? because the sums of genes from 10 bins calculated using R and unix/perl script were off by 50... ...
written 3.5 years ago by milk84110310
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Problems in dividing genome to non-overlapping bins and count genes
... Hello, I was working on analyzing the distribution of CNV-affected genes in a genome, so I divided the genome into non-overlapping bins with same length and looking at the number of CNV-affected genes within each bin. the method I used was from this post: https://www.biostars.org/p/169171/#204280 A ...
genome R unix gene written 3.5 years ago by milk84110310 • updated 3.5 years ago by RamRS25k
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Comment: C: Finding gene density from reference genome using R
... hello, sorry to bring this question up after so long, but do you know if there ways to do the same thing with my own genomic sequences and annotation gff file rather than using what is incorporated in bioconductor? Thanks a lot! ...
written 3.6 years ago by milk84110310
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Comment: C: CNV detection for plant genome
... Hello, I am also looking for good CNV detection programs for polyploid plant genomes. Do you mind sharing which programs you end up using and how do you think about them? Thanks a lot!! ...
written 3.7 years ago by milk84110310
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Comment: C: CNVnator CNV-calling result interpretation
... yeah i found the explanations were basically the same as when they labelled the values as p-vals, just the p-vals are changed into e-vlue, but in my results I could get really large e-vals (>>1) which is impossible for p-values which makes me wonder (otherwise why would they change p-vals to e ...
written 3.7 years ago by milk84110310
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CNVnator CNV-calling result interpretation
... Hello all, I am a new-comer in bioinformatics and I don't really have a strong stats background. Recently while I am using CNVnator v0.3.2 for a project, I bump into questions when trying to make sense of results from the CNV calling step. I would really appreciate it if anyone can help me with the ...
genome cnvnator sequence cnv written 3.7 years ago by milk84110310 • updated 3.7 years ago by Eric T.2.6k

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