User: Sam

gravatar for Sam
Sam20
Reputation:
20
Status:
New User
Location:
canada
Last seen:
8 months ago
Joined:
5 years, 5 months ago
Email:
b************@gmail.com

Posts by Sam

<prev • 10 results • page 1 of 1 • next >
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Tools for multi-dimensional dot-plot and synteny with multiple genomes
... Hi there... I am looking for a tool/tools to create multi-dimensional dot-plot and synteny with multiple genomes, I found an example but not sure how these were done and what kind of tools used. Any suggestion would welcome https://imgur.com/a/YK66f22 The above figure is from this article, https: ...
R written 9 months ago by Sam20 • updated 7 months ago by Biostar ♦♦ 20
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Comment: C: geom_bar plot with several variables
... Hi, Wonderful explanations. Thanks! But like to know how to rearrange the variables in the each box. for example, petal.length, sepal.length, petal.width, sepal.width Also how about display in descending order. Thanks ...
written 11 months ago by Sam20
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Comment: C: extract lines with multiple conditions on multiple fields/column
... Thanks, Arup for formatting the data. Also it would be helpful to know how to paste excel data on Biostar effectively. ![not sure why the data looks messy though it looks good on the preview][1] [1]: https://i.ibb.co/92CjrYk/bst.png ...
written 11 months ago by Sam20
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Answer: A: Denovo genome assembly
... Have you tried these combinations correct and PacBio reads with CANU Hybrid assembly ( corrected pacbio + illumina) using Masurca polish with pilon if necessary There is also a concept called meta-assembly using the different assembly from multiple assemblers to creat best one follow the link for m ...
written 11 months ago by Sam20
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Comment: C: extract lines with multiple conditions on multiple fields/column
... Thanks, Sus... But I have > 100 columns, is that possible to search a range of columns as a condition. for example. choose between $3 to $100 something like this ... awk -F "," '($3:$100 >= 0.5 && $3:$100 <= 1) input.csv > out.csv ...
written 11 months ago by Sam20
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Comment: C: extract lines with multiple conditions on multiple fields/column
... ************************** ...
written 11 months ago by Sam20
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7 follow
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extract lines with multiple conditions on multiple fields/column
... I have a big file contains a huge amount of SNP data, I like to search multiple columns ( here column 3 to 5) and filter any lines contain values between 0.5 to 1. SNP NN1 NN2 NN3 1 AG 0.0 0.0 1.0 2 CC 0.2 0.0 2.0 3 CC 0.3 0.5 0.0 4 AA 0.5 0.5 1.0 5 GG 0.4 0.0 0.0 expecte ...
grep sed awk written 11 months ago by Sam20 • updated 11 months ago by Arup Ghosh2.6k
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Comment: C: Calculating ratios by group in R
... Awesome...thanks a lot @zx8754, it worked well. I will make to use dput format for future requests. Friederike and Jean-Karim Heriche - sorry that the ratios were wrong (for missingness) in my expected output because it was from my entire data set (180x35000) as I subsampled but forgot to calculate ...
written 11 months ago by Sam20
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Calculating ratios by group in R
... Hi there, I would like to calculate ratio of NN (total markers/ total NN) from different groups (here 6 sample A and B-groups) in R. It must be easy but I couldn't any example online. I have found some similar answer but as a newbie to R, I couldn't annotate the code. https://stackoverflow.com/qu ...
R snp written 11 months ago by Sam20 • updated 11 months ago by zx87549.4k
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How to add header name to all annotation lines
... Hi there, how to append the header line (chromosome or scaffold) to the end of each annotation. ---------- **Input:** @Chr1 54584 54773 100 1.9 98 55019 55105 22 3.9 22 ---------- @Chr2 2226 2261 18 1.9 19 4211 4259 26 1.9 25 4426 4468 22 2 22 ---------- @utg7294 919 145 ...
fasta sequencing written 17 months ago by Sam20 • updated 17 months ago by JC11k

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