User: steve

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steve880
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880
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4 days, 3 hours ago
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Posts by steve

<prev • 94 results • page 1 of 10 • next >
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Comment: C: Linux Systems Administrator Required - Bioinformatics Experience - Oxford - Cont
... where is "Oxford"? There are [many](https://www.google.com/search?q=town+of+Oxford) ...
written 23 days ago by steve880
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Comment: C: Bioinformatics independent research group
... you might want to rephrase your post as a "study group" and not a "research group" then ...
written 23 days ago by steve880
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Comment: C: Drawing Chromosome Ideograms With Data
... there is a post here: (https://www.biostars.org/p/269857/) which might help get you started, it does not currently include the cytobands but you can add them with the file `cytoBand.txt.gz` from [here](http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/) ...
written 26 days ago by steve880
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Comment: C: Plot Positions On Chromosomes
... I've made a post [here](https://www.biostars.org/p/269857/) with an example on how to create a plot that might help with this ...
written 26 days ago by steve880
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Comment: C: Chromosome Plot In R
... 6 years later, I've made a post [here](https://www.biostars.org/p/269857/) with an example on how to create a plot like this. ...
written 26 days ago by steve880
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Tutorial: Creating chromosome karyotype plot with R and ggplot2
... There are numerous resources for creating karyotype and ideogram plots, such as those posted [here](https://www.biostars.org/p/378/). You can use a variety of software packages for this, along with various R Bioconductor packages. But what happens when you want to customize your plots beyond what ...
R karyotype ggplot2 tutorial chromosome written 27 days ago by steve880
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Comment: C: How to run multiple commands on Mac OSX
... the macOS (OS X) terminal uses the `bash` shell by default. As such, you can take advantage of shell scripting for these kinds of tasks. There are plenty of tutorials on how to do this, check out some of [these](https://www.google.com/search?q=bash+shell+scripting+tutorial). If you need ideas on how ...
written 4 weeks ago by steve880
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Comment: C: Creating Interactive Volcano Plots with R and Plot.ly
... 1. Are you referring to the hard-coded black arrows on the plot? In this example, that is coming from the `top_peaks` data frame; you can substitute this for any df that has the gene name & values, just tweak the `for` loop shown to put the Fold Change, FDR, and Gene Name in the `x`, `y`, and `t ...
written 5 weeks ago by steve880
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Comment: C: Extract specific genes from VCF file?
... For that command to work, the gene ID's must be contained in the file; I do not think this is typically the case for a VCF file. You will want to make sure that your VCF is annotated first. Might help to open the VCF in Excel to check on its contents. ...
written 8 weeks ago by steve880
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Comment: C: Is there a Lims that doesn't suck?
... Do you have an overview of how you went about building this? Been reading the Drupal docs, and it is not clear to me how to use it for this purpose, or how you used it to build the licebase website you listed. ...
written 11 weeks ago by steve880

Latest awards to steve

Great Question 28 days ago, created a question with more than 5,000 views. For Creating Interactive Volcano Plots with R and Plot.ly
Appreciated 5 weeks ago, created a post with more than 5 votes. For Automatic IGV snapshot script
Popular Question 11 weeks ago, created a question with more than 1,000 views. For How to tell which transcript is the canonical transcript?
Popular Question 3 months ago, created a question with more than 1,000 views. For Visualization of ChIP-Seq peak overlaps using HOMER mergePeaks and UpSetR
Commentator 5 months ago, created a comment with at least 3 up-votes. For C: StackExchange/Area51 bioinformatics is back
Appreciated 5 months ago, created a post with more than 5 votes. For Automatic IGV snapshot script
Appreciated 6 months ago, created a post with more than 5 votes. For Automatic IGV snapshot script
Student 6 months ago, asked a question with at least 3 up-votes. For How to tell which transcript is the canonical transcript?
Popular Question 9 months ago, created a question with more than 1,000 views. For Creating Interactive Volcano Plots with R and Plot.ly
Voter 9 months ago, voted more than 100 times.
Appreciated 12 months ago, created a post with more than 5 votes. For Creating Interactive Volcano Plots with R and Plot.ly
Student 13 months ago, asked a question with at least 3 up-votes. For How to tell which transcript is the canonical transcript?
Supporter 15 months ago, voted at least 25 times.
Scholar 17 months ago, created an answer that has been accepted. For A: Visualization of Homer mergePeaks output Venn?
Scholar 17 months ago, created an answer that has been accepted. For A: Visualization of Homer mergePeaks output Venn?
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: Visualization of Homer mergePeaks output Venn?

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