Learning Python Programming - a bioinformatician perspective !
...rial series article, I will explore features and packages of python which are wid...hows NGS data processing with the help of python packages and programming. Pytho...amino acid residues, which we as biologists are particularly fond of) In gene...2235 days ago
Frequent Paired-end reads (PE 2x100) mapping command lines
bowtie2 -x hs37m -X 650 -q -1 r1.fq -2 r2.fq -S r12.bowtie2.sam bwa aln hs37m.fa r1.fq > r1.sai && bwa aln hs37m.fa r2.fq > r2.sai \ &&a...2234 days ago
Ancestral sequence reconstruction steps !
...protein 'resurrection' was suggested in 1963 by Pauling and Zuckerkandl. So...t --maxiterate 1000 --reorder --thread 24 --genafpair Dataset.fasta > Dataset_...://hyphy.org/w/index.php/Download" 4.5- Path-o-Gen (temporal structure o...2231 days ago
Gap filling or Contigs extensions tools !
...bly approach to fill the gap within paired reads" or "Toward almost...http://derisilab.ucsf.edu/index.php?page=software You could also...content/bcm-hgsc-software), and SCARPA (http://compbio.cs.toronto.ed...C = C0. 2. Repeat: a. Identify paired-end reads (not in C) for...2217 days ago
LINKS scaffolder bloomfilter setting !
...aster) ✗ ./LINKS Usage: ./LINKS [v1.8.6] -f sequences to scaffold (Multi-FASTA format, required) -s file-of-filenames, full path to long sequence reads or MPET pairs [see below] (Multi-FASTA/f...2203 days ago
Understanding BLASTn output format 6 !
...sequence lengthsseqid Subject Seq-idsallseqid All subject Seq-id(s), separated by a ';'sgi Subjec...lignment in subjectsend End of alignment in subjectqseq Aligned part of query sequencesseq ...2191 days ago
Interview Puzzles for Bioinformatician !
...are some of the most famous Interview Puzzles being asked in top tech companies.Here is a list of Top 25...es got repeated a number of times in interviews even for top tech companies2171 days ago
List of non-commercial NGS genotype-calling software
...ex.html Single-sample High-quality variant database (for example, dbSNP) Package for NGS data analysis, w...on Samtools http://samtools.sourceforge.net/ Multi-sample Aligned reads Package for manipulation of NGS...2148 days ago
Parallel Processing with Perl !
...d process and takes the variables and code with it to analyze it separately (detached from the parent process) and thus a separ...child process). Instead, I would suggest each fork writing to a separate file and after the proces...2132 days ago
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