BOL: All wire posts

Wire post by Neel

Neel — Thu, 18 Oct 2018 09:19:02 -0500

http://www.bioconductor.org/packages/release/bioc/vignettes/BSgenome/inst/doc/GenomeSearching.pdf #Genome #Search #Mask

Wire post by Neel

Neel — Thu, 18 Oct 2018 09:00:03 -0500

BAM2BED conversion bamToBed -i overall_exp_genome_rep1.bam > alignment.bed #Bed #bam #bamToBed #convert

Wire post by Jit

Jit — Thu, 18 Oct 2018 07:38:36 -0500

Machine Learning books https://semanti.ca/blog/?the-most-important-machine-learning-books #books #machine #learn

Wire post by BioStar

BioStar — Mon, 15 Oct 2018 07:00:57 -0500

Check the file systems and sizes. $ df --block-size=G #Linux #Size #df

Wire post by Neel

Neel — Fri, 12 Oct 2018 08:40:27 -0500

Next generation error correction https://lib.dr.iastate.edu/cgi/viewcontent.cgi?article=6104&context=etd #Error #Correct #NGS #Algorithms

Wire post by Neel

Neel — Fri, 12 Oct 2018 08:12:05 -0500

Generate consensus from BAM file samtools mpileup -uf chr5B_leaf_rust.fasta M27454_5B_reads_sorted.bam | bcftools call -c | vcfutils.pl vcf2fq #BAM #Consensus

Wire post by Neel

Neel — Fri, 12 Oct 2018 07:37:52 -0500

Consensus of nucleotide sequences https://www.perlmonks.org/bare/?node_id=500962 #Consensus #Nucleotide #DNA

Wire post by Neel

Neel — Tue, 09 Oct 2018 14:35:36 -0500

PacBio data to download http://www.cbcb.umd.edu/software/PBcR/original/index.html #pacbio #data

Wire post by Rahul Nayak

Rahul Nayak — Mon, 08 Oct 2018 08:42:39 -0500

https://www.ebi.ac.uk/about/news/announcements/25-genomes-UK-species #Genomes #Sequenced #UK

Wire post by Rahul Nayak

Rahul Nayak — Mon, 08 Oct 2018 04:07:37 -0500

https://pb-falcon.readthedocs.io/en/latest/quick_start.html#quick-start #Falcon-Unzip #Genome #Assembly

Wire post by Rahul Nayak

Rahul Nayak — Sun, 07 Oct 2018 11:03:59 -0500

https://blog.rstudio.com/2018/10/05/r2d3-r-interface-to-d3-visualizations/ #r2d3 #visualization

Wire post by Rahul Nayak

Rahul Nayak — Thu, 04 Oct 2018 16:09:46 -0500

Mapping subreads https://bioconductor.org/packages/release/bioc/vignettes/Rsubread/inst/doc/SubreadUsersGuide.pdf #R

Wire post by Abhimanyu Singh

Abhimanyu Singh — Tue, 02 Oct 2018 18:23:57 -0500

#SSPACE Basic, SSAKE-based #Scaffolding of Pre-Assembled Contigs after Extension https://github.com/nsoranzo/sspace_basic

Wire post by Abhimanyu Singh

Abhimanyu Singh — Tue, 02 Oct 2018 18:21:27 -0500

#BLASTCLUST - BLAST score-based single-linkage #clustering. http://nebc.nerc.ac.uk/bioinformatics/documentation/blast/blastclust.html

Wire post by Jit

Jit — Tue, 02 Oct 2018 08:17:01 -0500

#Mappy provides a convenient #interface to #minimap2, a fast and accurate #C program to #align #genomic and transcribe nucleotide #sequences. https://pypi.org/project/mappy/