Results for "N"
Top-level pages
Ancestral sequence reconstruction steps !
Ancestral sequence reconstruction (ASR) – also known as ancestral gene/sequence reconstruction/resurrection...method was developed further in the early 2000s to allow the....bio.uottawa.ca/dambe.asp"; 4- Has evidence of possi...2233 days ago
Gap filling or Contigs extensions tools !
There are many tools to perform gap filling using Illumina short reads, for example "Ga...ols like GAPresolution that can help to perform local re-asse...Here there is a useful explanation of several tools. htt...e, Set S = S'. 3. If you don't have a complete assembly of...2219 days ago
LINKS scaffolder bloomfilter setting !
...rwxrwxr-x 3 urbe urbe 4096 Jun 15 12:15 lib -rwxrwxrwx 1 urbe urbe 65141 Jun 15 17:13 LINKS ➜ bin git:(m...Filter_wrap.cxx -I/home/urbe/anaconda3/lib/perl5/5.22.0/x86_6...ib git:(master) ✗ cd .. ➜ bin git:(master) ✗ ./LINKS Usa...scaffold (default -l 5, optional) -a maximum link ratio be...2205 days ago
Understanding BLASTn output format 6 !
BLASTn output format 6 BLASTn maps DNA against DNA, for example gene sequences against a reference genomeblastn -query genes....core bit score Define your own output format by a...length Alignment lengthpident Percentage of identical m...2193 days ago
Interview Puzzles for Bioinformatician !
...are some of the most famous Interview Puzzles being asked in top tech companies....zle Five pirates and gold coin Puzzle Six pirates and Gold...uzzle Gold Bar Puzzle Crossing the Bridge Puzzle Will you...u may refer,Top 15 Microsoft Interview PuzzlesMicrosoft Inter...2174 days ago
My commonly used commands in Bioinformatics
FYI, I've found it useful to use MUMmer to extract the specific changes that Racon makes, so I can evaluate them individually: minimap...embly.fasta long_reads.fastq.gz | racon -t 24 long_reads.fastq.gz - a...elta This reports Racon's changes in a table. You can exclude inde...2165 days ago
List of non-commercial NGS genotype-calling software
Meaningful analysis of next-generation sequencing (NGS) data, which are produced extensively by genetics and genomics studies, re...and genotype calling using single individuals and allele fre...udes a mode for genotype calling IMPUTE2 http://mathgen.stat...2151 days ago
Parallel Processing with Perl !
Here is a small tutorial on how to make best use of multiple processors for bioinformatics analysis. One best way is using perl threads and forks. Know...ple usage:use Parallel::ForkManager;my $max_processors=8;my $..../){next;}print $file,”\n”;########## Start fork...2134 days ago
- The benchmark module is a great tool to know the time the code takes to run. The output is usually in term...ptimize our code. With the advent of petascale computing and o...the module Example1: use Benchmark; $first_time = Benchma...an use it to know the time taken by some part of the code in t...
2134 days ago
- It's been a while since I last installed BLAT and when I went to the download directory at UCSC: h...u can also get pre-compiled binaries at: http://hgdownlo...ources know what type of machine you are compiling the softwa...re is a master make template in the inc directory c...
2117 days ago
