BOL: All wire posts

Wire post by Poonam Mahapatra

Poonam Mahapatra — Mon, 11 Dec 2017 04:22:59 -0600

Remove duplicate fasta ids: awk '/^>/{f=!d[$1];d[$1]=1}f' in.fa > out.fa #duplicate #fasta #ids

Wire post by Rahul Agarwal

Rahul Agarwal — Sun, 10 Dec 2017 17:52:09 -0600

All R packages for time series analysis- https://cran.r-project.org/web/views/TimeSeries.html

Wire post by Rahul Agarwal

Rahul Agarwal — Sun, 10 Dec 2017 07:51:50 -0600

Complete and excellent tutorial for Single Cell Sequencing- https://hemberg-lab.github.io/scRNA.seq.course/index.html

Wire post by Rahul Agarwal

Rahul Agarwal — Sun, 10 Dec 2017 07:50:42 -0600

List of excellent scRNA-seq analysis tools- https://github.com/seandavi/awesome-single-cell

Wire post by Rahul Nayak

Rahul Nayak — Sun, 10 Dec 2017 06:28:26 -0600

Marginal plot in R https://stackoverflow.com/questions/8545035/scatterplot-with-marginal-histograms-in-ggplot2 #R #Plot #Marginal

Wire post by Jit

Jit — Thu, 07 Dec 2017 12:55:05 -0600

Why are de Bruijn #graphs useful for #genome #assembly? https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5531759/

Wire post by Neel

Neel — Wed, 06 Dec 2017 09:09:51 -0600

Store all files in a array using perl: my @filesbwa = <$base_name/reads/$base_name.$library.bwa.*fa> #Store #Keep #Array #Perl

Wire post by Jit

Jit — Wed, 06 Dec 2017 02:15:54 -0600

#Error filtering, pair assembly and error #correction for next-generation sequencing #reads https://academic.oup.com/bioinformatics/article/31/21/3476/194979

Wire post by Surabhi Chaudhary

Surabhi Chaudhary — Sun, 03 Dec 2017 17:47:00 -0600

Remove the unwanted characters from Fasta file: sed -e '/^[^>]/s/[^ATGCatgc]/N/g' infile.fa #sed #unwanted #illegal #remove #correct #fasta #linux

Wire post by Radha Agarkar

Radha Agarkar — Sun, 03 Dec 2017 15:39:46 -0600

Remove the fasta with zero size: awk 'BEGIN {RS = ">" ; FS = "\n" ; ORS = ""} $2 {print ">"$0}' input.fas > output.fas #fasta #remove

Wire post by Neel

Neel — Sat, 02 Dec 2017 08:51:07 -0600

Bioinformatics JRF at IIT https://www.iitr.ac.in/administration/uploads/File/bt/2017/adv30112017.pdf #JRF

Wire post by Jit

Jit — Wed, 29 Nov 2017 04:46:18 -0600

Linux command to find the file contains a string "LOCK_EX": grep -Ril "LOCK_EX" / #Root #Find #Linux #Grep #search

Wire post by Rahul Nayak

Rahul Nayak — Sat, 25 Nov 2017 05:20:44 -0600

Random forest algorithms http://blog.yhat.com/posts/random-forests-in-python.html #forest #random #algo

Wire post by Archana Malhotra

Archana Malhotra — Fri, 24 Nov 2017 02:11:48 -0600

Understanding MinION data https://porecamp.github.io/2016/tutorials/PoreCamp2016-02-MinIONData.pdf #data #understand #learn

Wire post by Jit

Jit — Thu, 23 Nov 2017 08:23:41 -0600

Fastq 2 fasta. $ sed -n '1~4s/^@/>/p;2~4p' test.fastq > test.fasta #fastq #fasta #convert