Run miniasm assembler on nanopore reads !
...xava-ont ONT_A.fasta ONT_A.fasta -t10 -X > AONT.paf awk '{if($1==$6){print}}' AONT.paf > AONTs....fasta AONT_miniasm.fasta -t1 -X > AONT_miniasm.paf awk '{if($1==$6){print}}' AONT_miniasm.paf &g...2379 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
...able here:https://sourceforge.net/projects/bbmap/ The sensitivity can be raised to be equivalent to BBMap with these flags: "minratio=0.56 minhits=1 maxindel=16000"2364 days ago
2354 days ago
PerlOneLiner for Bioinformatician
...unpack("N", inet_aton("127.0.0.1"))' # Convert an unsigned integer to an IP addressperl -MSocket -le 'print inet_ntoa(pack("N", 2130706433))'perl -le '$ip = 2130706433; print join ".", map { (($...2351 days ago
List of visualization tools for network biology
...Analysis of biochemical networks and their dynamics http://www.copasi.org/ Cytoscape Network visualization and analysis. Over 200 plugins [60] http://www.cytoscape.org/...2337 days ago
List of visualization tools for genome alignments
...ocument/cda_downloaddocument/9789401792448-c2.pdf?SGWID=0-0-45-1487072-p176815501 LookSeq Web-bas...cale single-end and pair-end short reads http://omictools.com/mapview-s1367.html MultiPipMaker Compute...2333 days ago
Linux Commands Cheat Sheet for Bioinformatics and Computational Biology Professionals
...and o can be any number between 0 and 7. 7 — full permissions 6 — read and write o...rite only 1 — execute only 0 — no permissions chmod 600 file — you can r...2330 days ago
Computational resources for TE discovery and TE detection
...p://genomebiology.com/2004/5/10/R79/suppl/s7 LTR_par http://www.eecs.wsu.edu/~ananth/software.htm MAK http://wesslercluster.plantbio.uga.edu/mak06.html MaskerAid http://blast...2323 days ago
Bioinformatics tools to detect horizontal gene transfer (HGT) in genomes
...T-REX / 3.22 HGT detection / download & compile 20525630 RANGER-DTL / 2.0 HGT detection / download binary 22689773 PhyloNet /...899 days ago
Python learning resources for bioinformatics and computational biologist !
...(2.1.1) Building Skills in Python (PDF) (2.6) Code Like a Pythonista: Idi...bsp;(PDF) Hitchhiker's Guide to Python! (2.6) How to Make Mistakes in Pyt...ctice Projects Python Programming (PDF) (2.6) Scipy Lecture Notes SICP i...2304 days ago