BOL: All wire posts

Wire post by Neel

Neel — Tue, 14 Nov 2017 10:28:16 -0600

3D-Jury: a simple approach to improve protein structure predictions #Protein #Predict #Structure https://academic.oup.com/bioinformatics/article/19/8/1015/235399

Wire post by Jit

Jit — Mon, 13 Nov 2017 08:25:36 -0600

Example commands to remove lower-case masking:
perl -pe '/^[^>]/ and $_=uc' genomic.fna > genomic.unmasked.fna

Wire post by Jit

Jit — Mon, 13 Nov 2017 08:10:41 -0600

#Algorithms for computing parsimonious #evolutionary scenarios for genome evolution: https://bmcevolbiol.biomedcentral.com/articles/10.1186/1471-2148-3-2

Wire post by Jit

Jit — Fri, 10 Nov 2017 15:57:09 -0600

Overlap Layout Consensus assembly http://www.cs.jhu.edu/~langmea/resources/lecture_notes/assembly_olc.pdf #OLC #Assembly

Wire post by Jit

Jit — Fri, 10 Nov 2017 08:41:33 -0600

Comparison of the two major classes of #assembly algorithms: overlap–layout–consensus and de-bruijn-graph https://academic.oup.com/bfg/article/11/1/25/191455

Wire post by Jit

Jit — Fri, 10 Nov 2017 03:57:18 -0600

hybrid assembly pipeline for bacterial genomes with Unicycler: https://github.com/rrwick/Unicycler #Unicycler #Hybrid #Bacteria

Wire post by Jit

Jit — Thu, 09 Nov 2017 07:37:05 -0600

Sort a file with column 2: sort -g -k 2,2 allPacbio.fa.fai > sorted.fai #sort #file #column

Wire post by Jit

Jit — Wed, 08 Nov 2017 12:05:57 -0600

Get the reads in fastq file: awk '{s++}END{print s/4}' file.fastq #reads #count #ngs #fastq

Wire post by Jit

Jit — Tue, 07 Nov 2017 09:32:11 -0600

De Bruijn graph Tutorial http://www.cs.jhu.edu/~langmea/resources/lecture_notes/assembly_dbg.pdf #Assembly #Tutorial #DeBruijn

Wire post by Jit

Jit — Tue, 07 Nov 2017 04:04:21 -0600

Understanding alignment https://www.cs.umd.edu/class/fall2011/cmsc858s/Alignment.pdf #Alignment #Learn

Wire post by Jit

Jit — Mon, 06 Nov 2017 12:53:48 -0600

Genetic algorithms with Python https://github.com/handcraftsman/GeneticAlgorithmsWithPython #Python #GA

Wire post by Jit

Jit — Mon, 06 Nov 2017 02:55:47 -0600

We are still working on to fix some of the missing BOL data. sorry for the inconvenience caused. #BOL #Work #Data #Missing #Recover

Wire post by Jit

Jit — Thu, 12 Oct 2017 09:36:48 -0500

Sorry, due to server transfer BOL is facing some difficulties loading data ... we will try to resolve it ASAP.

Wire post by Jit

Jit — Thu, 10 Aug 2017 04:21:16 -0500

Remove duplicated lines from text file. $ awk '!seen[$0]++' allIds #duplicate #lines #remove #awk

Wire post by Rahul Nayak

Rahul Nayak — Tue, 08 Aug 2017 17:14:03 -0500

Toy example comparing several MSA algorithms http://wiki.bits.vib.be/index.php/Multiple_sequence_alignment #Alignment #MSA #Algorithms