3947 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
...ariant detection Versatile and open software for comparing large genomes. Kurtz et al, Genome Biol (5(2):R12, 2004. PubMedCentral [describes the MUMmer software for full-genome alig...3784 days ago
Commercial and public next-gen-seq (NGS) software
...and memory-efficient manner. Robust to INDELs and MrsFAST has a bisulphite mode. Authors are from the University of Washington. C as source. MUMmer - MUMmer is a modular system for the r...3524 days ago
Software packages for next gen sequence analysis
...nd memory-efficient manner. Robust to INDELs and MrsFAST has a bisulphite mode. Authors are from the University of Washington. C as source. * MUMmer - MUMmer is a modular system for the r...3248 days ago
Tools for Searching Repeats And Palindromic Sequences
...ophisticated repeat finding you will want to look at tools using Repbase for example: CENSOR CENSOR@GIRI CENSOR@EMBL-EBI RepeatMasker MUMmer (scan_for_match) Emboss...2216 days ago
Computational resources for TE discovery and TE detection
...er.org/ RepeatRunner http://www.yandell-lab.org/repeat_runner/index.html RepeatScout http://repeatscout.bioprojects.org/ repeat-match http://mummer.sourceforge.net/ REPuter ht...2279 days ago
Some useful Bioinformatics links
...ps://academic.oup.com/bioinformatics/article/28/4/495/212883 The MUMmer 3 examples http://mummer.sourceforge.net/examples/ MAF...s https://www.biostars.org/p/56246/ The MUMmer 3 manual http://mummer.sourceforge.net/manual/#nucme...2247 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...nbsp;-I option in show-snps. This process (Racon -> MUMmer -> SNP table) solves the p...2115 days ago