Rahul Nayak
A Bioinformatician
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- BioStar on Benchmarking Perl Module ! (615 days ago): Benchmarking a Perl module involves measuring the performance of the module in...
- biogeek on Learning Python Programming - a bioinformatician perspective ! (1632 days ago): Python for Biologist http://userpages.fu-berlin.de/digga/p4b.pdf
- Jit on Interview Puzzles for Bioinformatician ! (2319 days ago): Here is the list of puzzles which are asked these days in the Interview Ant...
- Jitendra Narayan on Software packages for next gen sequence analysis (3108 days ago): MaGuS: a tool for quality assessment and scaffolding of genome assemblies with...
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Bioinformatics, Computational Biology, Linux, Example, Tools, Commands, NGS, Genome, Python, Programming, Perl, script, Find, Search, learn, World, Genomics, Deep Sequencing, OS, Open Source, Command lines, Sequence, Assemblied, Education, Align, Software, SNP, List, alignments, visualization, Cheat, Sheet, Computational, Biology, Professionals, Oneliner, coding, perspective, bioinformatician, Learning, extensions, Contigs, filling, Gap, 6, format, output, alignment, blast, BLASTn
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Rahul Nayak's pages
World promising health companies !
Last updated 1786 days ago by Rahul NayakThe health care industry is expected to sustain stable growth over the next decade for a variety of reasons. Advances in medicine have prolonged the average lifespans of most people, requiring more health care treatments over longer terms. In years...-
Parallel Processing with Perl !
Last updated 2280 days ago by Rahul NayakHere 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. Knowing how these threads and forks work is very important before implementing them. Getting to know... -
My commonly used commands in Bioinformatics
Last updated 2310 days ago by Rahul NayakFYI, I've found it useful to use MUMmer to extract the specific changes that Racon makes, so I can evaluate them individually: minimap -t 24 assembly.fasta long_reads.fastq.gz | racon -t 24 long_reads.fastq.gz - assembly.fasta... -
Interview Puzzles for Bioinformatician !
Last updated 2319 days ago by Rahul Nayak Comments (1)These are some of the most famous Interview Puzzles being asked in top tech companies.Here is a list of Top 25 puzzles which have been asked in top Tech Interview. 2 Eggs and 100 Floor Classic Puzzle Five pirates and gold coin Puzzle Six... -
Understanding BLASTn output format 6 !
Last updated 2338 days ago by Rahul NayakBLASTn output format 6 BLASTn maps DNA against DNA, for example gene sequences against a reference genomeblastn -query genes.ffn -subject genome.fna -outfmt 6 BLASTn tabular output format 6 Column headers:qseqid sseqid pident... -
Gap filling or Contigs extensions tools !
Last updated 2365 days ago by Rahul NayakThere are many tools to perform gap filling using Illumina short reads, for example "GapFiller: a de novo assembly approach to fill the gap within paired reads" or "Toward almost closed genomes with GapFiller". There are also some tools like... -
Learning Python Programming - a bioinformatician perspective !
Last updated 2383 days ago by Rahul Nayak Comments (1)Python Programming is a general purpose programming language that is open source, flexible, powerful and easy to use. One of the most important features of python is its rich set of utilities and libraries for data processing and analytics... -
Bioinformatics OneLiner
Last updated 2417 days ago by Rahul NayakTo remove all line ends (\n) from a Unix text file: sed ':a;N;$!ba;s/\n//g' filename.txt > newfilename_oneline.txt To get average for a column of numbers (here the second column $2): awk '{ sum += $2; n++ } END { if (n > 0) print sum / n;... -
Linux Commands Cheat Sheet for Bioinformatics and Computational Biology Professionals
Last updated 2480 days ago by Rahul NayakThe purpose of this cheat sheet is to introduce biologist and bioinformatician to the frequently used tools for NGS analysis as well as giving experience in writing one-liners. File System ls — list items in current directory ls... -
List of visualization tools for genome alignments
Last updated 2484 days ago by Rahul NayakGenome browsers are useful not only for showing final results but also for improving analysis protocols, testing data quality, and generating result drafts. Its integration in analysis pipelines allows the optimization of parameters, which...
