User: Sreeraj Thamban

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80
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Location:
Indian Institute of Science Education and Research
Last seen:
20 hours ago
Joined:
6 months, 3 weeks ago
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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 8 days 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 13 days ago by Sreeraj Thamban80 • updated 13 days ago by Kevin Blighe7.3k
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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 21 days ago by Sreeraj Thamban80 • updated 21 days ago by andrew.j.skelton734.1k
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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 21 days 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 23 days 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 24 days ago by Sreeraj Thamban80 • updated 5 days ago by EagleEye4.8k
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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 28 days 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 28 days ago by Sreeraj Thamban80 • updated 28 days ago by Hussain Ather150
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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 29 days 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 29 days ago by Sreeraj Thamban80

Latest awards to Sreeraj Thamban

Scholar 28 days ago, created an answer that has been accepted. For A: How I can produce graphs like this
Supporter 4 weeks ago, voted at least 25 times.

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