User: sansritisinha

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Posts by sansritisinha

<prev • 9 results • page 1 of 1 • next >
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Comment: A: Unable to install XLconnect package in R studio version 3.2.1
... Hi, I am using R 3.5.3 and I am unable to install xlconnect package. I get the following error: > install.packages("XLConnect") Installing package into ‘C:/Users/sansrity_thinkpad/Documents/R/win-library/3.5’ (as ‘lib’ is unspecified) trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.5 ...
written 4 months ago by sansritisinha0
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mean evolutionary rate (MER) calculations
... I used MEGA5.0 for computing MER for my dataset. the rates were computed based on JTT with an account of invariant sites model using 2 gamma categories for all positions in the alignment. these are scaled to 1 and sites showing rates >1 are suggested to be fast evolving. I wanted to understand th ...
gene alignment written 15 months ago by sansritisinha0
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Comment: C: plotting phylogenetic trees using R
... it worked. thank you so much! Can I export this tree in newick format? ...
written 2.9 years ago by sansritisinha0
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Comment: C: plotting phylogenetic trees using R
... how do I do that? I am using R for the first time. can you please help me with the code? ...
written 2.9 years ago by sansritisinha0
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Comment: C: plotting phylogenetic trees using R
... I used the following: library (ape) phylo <-read.tree ("mytree.nwk") drop.tip (phylo, "taxa_name") With this the taxa I wanted to remove was removed and the tree now had a taxa less than what it had. I do not know how to display/ rite/plot the modified tree ...
written 2.9 years ago by sansritisinha0 • updated 2.9 years ago by WouterDeCoster42k
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plotting phylogenetic trees using R
... I wanted to remove one of the taxa from the tree. so i downloaded ape package and using drop.tip i could remove the taxa. but I am unable to print/plot the modified tree. i tried using plot() for plotting the tree but it seems to be specified with ylim values. how do i get ylim values for the tree? ...
R phylogenetic tree written 2.9 years ago by sansritisinha0
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Comment: C: Delete A Node From Newick Tree
... I tried the bove and R displayed the msg with the taxon removed from the tree.. But I am unable to find the new tree file. do i need to print the new tree again. M using R for the first time. please help ...
written 2.9 years ago by sansritisinha0
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how to convert a protein sequence containing fasta file into DNA sequence containing file?
... i have a protein file containing protein sequences, all homologs of eacch other from different species. i want to convert all the sequences into a fasta file contaiining respective DNA sequences. we based tols convert only one sequence at a time. is there a way to convert all of them at once? ...
sequence written 4.3 years ago by sansritisinha0 • updated 4.3 years ago by Pierre Lindenbaum124k
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Comment: C: How Do I Quantify Divergence Between A Given Set Of Species?
... hello, i wanted to get a rough etimate of divergence times for my set of sequences. i used tme tree to get rough estimate of time lengths. since MEGA6 comes with RelTime for estimating divergence times i thought may be that is more reliable. but i dunno how to use it. is is asking for minimum and m ...
written 4.3 years ago by sansritisinha0

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