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Rahul Nayak
@rahul
Rahul Nayak
A Bioinformatician
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The Wire
Rahul Nayak
Rahul Nayak's wire posts
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2483 days ago
Ten steps to get started in
#Genome
#Assembly
and
#Annotation
https:/
/
f1000research.com/
articles/
7-148/
v1
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2511 days ago
Bioinformatics resources
https:/
/
github.com/
danielecook/
Awesome-Bioinformatics
#Bioinformatics
#Resources
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2531 days ago
Assessing an effective undergraduate module
#teaching
applied
#bioinformatics
to biology students
http:/
/
journals.plos.org/
ploscompbiol/
article?id=10.1371/
journal.pcbi.1005872
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2550 days ago
Bioinformatics tools collection and database
https:/
/
bio.tools
#tools
#database
#search
#list
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2569 days ago
Marginal plot in R
https:/
/
stackoverflow.com/
questions/
8545035/
scatterplot-with-marginal-histograms-in-ggplot2
#R
#Plot
#Marginal
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2584 days ago
Random forest algorithms
http:/
/
blog.yhat.com/
posts/
random-forests-in-python.html
#forest
#random
#algo
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2692 days ago
Toy example comparing several MSA algorithms
http:/
/
wiki.bits.vib.be/
index.php/
Multiple_sequence_alignment
#Alignment
#MSA
#Algorithms
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2713 days ago
Remove "|" from fasta header. $ sed 's,|,_,g' -i file.fa
#fasta
#header
#sed
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2713 days ago
Remove unwanted character from fasta file. sed -e '/^[^>]/s/[^ATGCatgc]/N/g' file.fa
#fasta
#file
#header
#charater
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2713 days ago
Evolution and phylogeny software
http:/
/
tree.bio.ed.ac.uk/
software/
#tools
#software
#phylogeny
#evolution
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2732 days ago
You can use the df command to know the free space in the disk: $ df -h .
#df
#Linux
#List
#Free
#Space
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2732 days ago
To know the size of the directory in current folder. $ du -sh *
#Size
#Directory
#List
#Space
#Linux
#du
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2739 days ago
Count the number of bases in fasta file. grep -v ">" file.fasta | wc | awk '{print $3-$1}'
#Fasta
#Count
#Bases
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2753 days ago
Convert masked genome to N letters. $ perl -pe '/^[^>]/ and $_=~ s/[a-z]/N/g' genomic.fna > genomic.N-masked.fna
#Genome
#Masked
#N
#Convert
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
2753 days ago
Unmasking the lower case values in genome. $ perl -pe '/^[^>]/ and $_=uc' genomic.fna > genomic.unmasked.fna
#Genome
#Unmask
#Perl
#Oneliner
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