Genome Assembly Tools and Software - PART1 !!
...Binning Assembled Metagenomic Sequences MaxBin is software for binning assembled metagenomic sequences based on an Expectation-Maxim...e scaffolds (super contigs of sequences joined by N-bases) using the...raw reads and a set of input sequences (starters). It first determin...2686 days ago
Phylogenetic & Molecular Genetics Terms and Definitions
...om from a cDNA library, used for identification and mapping of coding sequences, for discovery of new genes a...or between them than they do with any other clade. repetitive DNA -- Sequences of DNA that are found to be r...2463 days ago
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
.../kallisto/ Sailfish Estimation of isoform abundances from reference sequences and RNA-seq data (k-mer based...d2-tools/ VirHostMatcher Prediction of hosts from metagenomic viral sequences based on ONF using various di...2372 days ago
Tools for bacterial whole genome annotation
...pseudogenes, control regions, direct and inverted repeats, insertion sequences, transposons and other mobile...(iii) ICORN for identifying and correcting small errors in consensus sequences and; (iv) RATT for help annot...2332 days ago
Run miniasm assembler on nanopore reads !
...mat. Different from mainstream assemblers, miniasm does not have a consensus step. It simply concatenates pieces of read sequences to generate the final unitig sequences. Thus the per-base error rate...2331 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
...files, one per reference. BBSplit can only be run using references indexed with BBSplit, as they contain additional information regarding which sequences came from which reference fil...2315 days ago
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List of visualization tools for genome alignments
...emis/ DNannotator Annotation web toolkit for regional genomic sequences http://bioapp.psych.uic.edu/...=0-0-45-1487072-p176815501 LookSeq Web-based visualization of sequences derived from multiple sequenc...2284 days ago
Awk for Bioinformatician and computational biologist
...operator in print statement of the form print CONDITION ? PRINT_IF_TRUE_TEXT : PRINT_IF_FALSE_TEXT. For example, in the code below, we identify sequences with lengths > 14: $ awk...2280 days ago
Some useful Bioinformatics links
...map2: A versatile pairwise aligner for genomic and spliced nucleotide sequences https://github.com/lh3/minim...r https://www.nature.com/articles/nrc2591 bioinformatics - BLAST DNA Sequences Reversed - Biology Stack Exch...2242 days ago