User: H.Hasani

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H.Hasani880
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880
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Location:
Freiburg, Germany
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2 days, 6 hours ago
Joined:
4 years, 4 months ago
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h*************@yahoo.com

Posts by H.Hasani

<prev • 182 results • page 1 of 19 • next >
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Comment: C: Calculate correlations between ChipSeq data sets
... I would suggest [deeptools][1] [1]: https://deeptools.readthedocs.io/en/develop/ ...
written 24 days ago by H.Hasani880
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Comment: C: How to make a figure of gene mutation distribution like this using R language?
... Did you get it from a paper? if yes, you might find in their methods how they generated it, you can also contact the authors?! if you decide to use Lollipop, I would recommend [Lollipop-style mutation diagrams for annotating genetic variations][1] [1]: https://github.com/joiningdata/lollipops ...
written 25 days ago by H.Hasani880
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Answer: C: R: pedigree analysis
... I think it is because you have "0" as *dadid* and *momid*, you probably have to explicitly specify the parameter *missid* to "0" because *id* is not numeric or simply replace it by empty string. please check the [function's help page][1] [1]: https://www.rdocumentation.org/packages/kinship2/ve ...
written 27 days ago by H.Hasani880
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Comment: C: MultiQC not generating ouput ?
... yes, but according to output you are not. > [INFO ] multiqc : Searching : /home/doc/fastqgz/10_S9_R1_001.fastq.gz ...
written 5 weeks ago by H.Hasani880
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Answer: A: Create a heatmap
... why don't you annotate them using [ComplexHeatmap][1]? if you wanted to average over the stages then I wouldn't use heatmap for it, probably a boxplot with the different categories on one axis and the distribution of gene expression on the second axis. hth [1]: https://jokergoo.github.io/Complex ...
written 6 weeks ago by H.Hasani880
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Answer: A: How extract gene TPM from GTEx?
... You need `GTEx_Analysis_v8_Annotations_SampleAttributesDS.txt` instead of > GTEx_Analysis_v8_Annotations_SampleAttributesDD.xlsx the one you are using is meant to describe the columns of the actual "sampleAttributes" table ...
written 8 weeks ago by H.Hasani880
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Comment: C: ggplot second y-axis: how to specify a secondary axis if I don't want to scale m
... The `~.` means: use the values as defined in the `aes`, in your example it is `lkmean`. what comes after `~.` is a simple arithemtic operation. I'm not sure what exactly are you trying to reach by having two axises, but in principle, what you are doing is combining two plots merly because they shar ...
written 3 months ago by H.Hasani880
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Comment: C: ggplot second y-axis: how to specify a secondary axis if I don't want to scale m
... the function `scale_y_continuous` can be used without any scaling, like the ones in the example Ido has mentioned. If you look in the help of this function, you would know that the scaling happens when you specify the `trans` option ...
written 3 months ago by H.Hasani880
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TCGA mutations on Cbioportal
... Hello all, almost three years later I'm facing the same issue [here][1]. When using the downloaded data from Firehose, the number of mutations were more than the ones reported in cbioportal and particularly comparing with "provisional datasets", which according to cbioportal's FAQ it should contain ...
snp written 3 months ago by H.Hasani880
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Comment: C: grep with -f switch is not working
... well, that is the answer then! whatever you are grepping in that file doesn't match anything in the given directory due to spectial symbols and so! ...
written 4 months ago by H.Hasani880

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