Quick next generation sequencing (NGS) terms definition
fragment size: the Illumina WGS protocol generates paired-end reads from both ends of longer fragments. The len...Note that, by definition, the discordant read pairs signal potential SVs. The sequence...2534 days ago
Awesome perl frameworks, libraries and software - PART 1
A curated list of awesome Perl frameworks, libraries and software. major/MySQLTuner-perl - MySQLTuner is a script written in Perl that will assist you with your...2501 days ago
Phylogenetic & Molecular Genetics Terms and Definitions
analog -- A feature that appears similar in two taxa which have originated...ich depicts a hypothetical branching sequence of lineages leading to the ta...points of the cladogram. expressed sequence tag (EST) -- A partial coding...any other clade. repetitive DNA -- Sequences...2474 days ago
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
kallisto Transcript abundance quantification from RNA-seq dat...orm abundances from reference sequences and RNA-seq data (k-mer base...ariants directly from raw NGS sequence reads by counting unique ...ly with error-containing long sequence (e.g., ONT or PacBio reads, d...2383 days ago
Single Cell RNAseq data analysis tutorial !!
A major breakthrough (replaced microarrays) in the late 00’s and has been widely used since Measures the average expression level for each gene across...2363 days ago
2363 days ago
Tools for bacterial whole genome annotation
...bsp;provides detailed annotation and pathway analysis. Takes several hours per geno...ions, direct and inverted repeats, insertion sequences, transposons and other mobil...BlastKOLA: Assigns K numbers to the user's sequence data by BLAST searches, respec...2344 days ago
2317 days ago
List of visualization tools for network biology
...biomedcentral.com/articles/sections/networks-analysis. Following are the list of...tegrated multi-level analysis of microarray, sequence, regulatory and other data ht...Cytoscape Network visualization and analysis. Over 200 plugins [60] http:/...2300 days ago
List of visualization tools for genome alignments
Genome browsers are useful not only for showing final results but also...ph-based representation to display a sequence assembly and associated metad...on tool that allows visualization of sequence features, next-generation seq...nments of similar regions in two DNA sequences...2296 days ago