User: Sreeraj Thamban

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80
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Location:
Indian Institute of Science Education and Research
Last seen:
2 months, 3 weeks ago
Joined:
9 months, 3 weeks ago
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s***************@iisertvm.ac.in

Posts by Sreeraj Thamban

<prev • 43 results • page 1 of 5 • next >
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Plotting Results in EBSeq-HMM
... Hello Biostars, Is it possible to plot all genes belonging to one particular pattern in EBSeq-HMM results as a line graph? ...
ebseq-hmm rna-seq written 3 months ago by Sreeraj Thamban80
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Kallisto counts to Bayseq
... Hello Biostars, Is it possible to import Kallisto output to BaySeq? Which is the best way to do it? Thanks in advance ...
rna-seq written 3 months ago by Sreeraj Thamban80 • updated 3 months ago by Kevin Blighe13k
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Bayesian Estimation of Temporal Regulation-RNASeq
... Hi everyone recently I came across this [paper][1] where they used Bayesian Estimation of Temporal Regulation to analyze their time course RNASeq data. Can anyone suggest a good package in R or other software to do the same? [1]: https://www.ncbi.nlm.nih.gov/pubmed/28904073 ...
rna-seq written 3 months ago by Sreeraj Thamban80 • updated 3 months ago by andrew.j.skelton734.3k
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Comment: C: Fetching NCBI gene symbols from NCBI protein ids or GI identifiers
... Hi Vijay, Did you try using Biomart? it has some useful function to fetch gene symbols. ...
written 3 months ago by Sreeraj Thamban80
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Comment: C: Time course experiment in RNASeq
... Hello Ron, I checked the EBseq package, but I am bit confused about interpretation the 'pattern' which is given by EBseq. It gives a list of patterns but what exactly those pattern means? ...
written 3 months ago by Sreeraj Thamban80
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Time course experiment in RNASeq
... Hello Biostars, I have a time course experiment RNASeq data,one strain of bacteria and three time points 0h,1h,and3h. Which is the best method to identify the expression pattern of genes over time using this data? I want to generate a image like [this][1] [1]: https://ibb.co/fKqasb ...
rna-seq written 3 months ago by Sreeraj Thamban80 • updated 3 months ago by EagleEye4.9k
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Comment: C: Best tools for Visualing RNASeq data
... Hi Coster, I have a group of genes which are involved in a common pathway. I wanted to plot the overall trend of their expression pattern between treated and untreated samples. ...
written 3 months ago by Sreeraj Thamban80
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Best tools for Visualing RNASeq data
... Helloo biostars, I want visualise/plot the expression pattern of a set genes from my RNASeq data. Which are the best R packages or other softawares to do so? I came accross maSigPro and impulseDE but was not impressed by them. Thanks in advance ...
deseq2 rna-seq written 3 months ago by Sreeraj Thamban80 • updated 3 months ago by Hussain Ather700
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Answer: A: How I can produce graphs like this
... If you have basic knowledge in R you can use [ggplot2][1] to make good publication quality plots. Here is an excellent [guide][2] for ggplot2. HTH [1]: http://ggplot2.org/ [2]: https://www.amazon.com/Graphics-Cookbook-Practical-Recipes-Visualizing/dp/1449316956 ...
written 4 months ago by Sreeraj Thamban80
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Comment: C: Paired end vs Single end Differential gene expression analysis
... Hello Coster, Only the sequencing performed differently,library prep was same for both. ...
written 4 months ago by Sreeraj Thamban80

Latest awards to Sreeraj Thamban

Scholar 3 months ago, created an answer that has been accepted. For A: How I can produce graphs like this
Supporter 4 months ago, voted at least 25 times.

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