BOL

Genes and Genome https://genestogenomes.org/tag/chromosomes/

Fast utilities https://github.com/jimhester/fasta_utilities/tree/master/scripts #Scripts

#R #PiratePlot are cool, and impressive http://www.r-bloggers.com/the-pirate-plot-2-0-the-rdi-plotting-choice-of-r-pirates/

PAired-eND Assembler for DNA sequences https://github.com/neufeld/pandaseq #Sequence #Assembler #PANDAseq

#ConPADE: Genome #Assembly Ploidy Estimation from #Next-Generation Sequencing Data http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004229

Hapsembler http://compbio.cs.toronto.edu/hapsembler/hapsembler-2.1_manual.pdf

PLATform for Assembling NUcleotide Sequences http://platanus.bio.titech.ac.jp/ #Platanus #Assembler #Genome

A universal genomic #coordinate translator for comparative genomics https://github.com/nedaz/kraken #Genes #Translator #Synteny

Annotation transfer pipeline MAKER http://gmod.org/wiki/MAKER_Tutorial_2013 #Maker #Annotation #Pipeline

Dynamic programming http://www.avatar.se/molbioinfo2001/dynprog/dynamic.html #Programming #Alignment #Sequence #Dynamic

#Print all line #except those #contains a letter "T" that is not immediately followed by a "H" with: grep -v 'T[^H]'

#BAM file to #fastaq #conversion with #Samtool: samtools view filename.bam | awk '{OFS="\t"; print "@"$1"\n"$10"\n+\n"$11}' >| filename.fastq

#BAM file to fasta #conversion with #Samtool: samtools view filename.bam | \ awk '{OFS="\t"; print ">"$1"\n"$10}' - > filename.fasta

#Installing #python #pip https://pip.pypa.io/en/stable/installing/

A powerful #multiple #sequence #alignment #browser http://wasabiapp.org/