BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
BBSplit internally uses BBMap to map reads to multiple genomes at once, and determine which genome they match best. This is different than with ordinary mapping. If a genome (say, human) contains an exac...2313 days ago
List of visualization tools for genome alignments
Genome browsers are useful not onl...need publication ready figure of genomes. Following are the list of genome alignment visualization tools...ation information of a reference genome http://bioinformatics.zj.cn/...and visualizing sequenced human genomes http://www.svaproject.org...2283 days ago
Computational resources for TE discovery and TE detection
Transposable Elements (TEs) to genome structure and evolution as well as their impact on genome sequencing, assembly, annotation an...ta/LTR_Struc.html LTR_MINER http://genomebiology.com/2004/5/10/R79/supp...ourceforge.net/ REPuter http://www.genomes.de/ RetroMap http://www.bu...2273 days ago
Webinar on RNA-Seq Data Analysis on 28 Feb 2018
...nar will give an overview of the workflow which includes Transcriptome/ Genome alignment, Differential expre...le correlation, clustering, Venn diagrams, CVA, UMI support and elastic genome browser used in RNA-Seq workf...2263 days ago
Bioinformatics tools to detect horizontal gene transfer (HGT) in genomes
...ene by HGT, foreign DNA must enter the host nucleus, integrate into the genome, and in more complex organism...selection, despite potential for genetic incompatibility with the host genome and mismatch between the nich...849 days ago
Some useful Bioinformatics links
...assembly of the European eel genome from nanopore sequencing read...-scale scaffolding of de novo genome assemblies based on chromatin...ed on the FMD-index for large genomes https://github.com/lh3/ferm...oter_tutorial//Tutorial/CustomGenomes/CustomGenomes.html https://...2240 days ago
Tools to Predict the Impact of Missense Variants !
...ion (CADD)“CADD is a tool for scoring the deleteriousness of single‐nucleotide variants as well as insertion/deletions variants in the human genome”2202 days ago
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Gap filling or Contigs extensions tools !
...within paired reads" or "Toward almost closed genomes with GapFiller". There are a...ticular, take a look at the IMAGE tool: http://genomebiology.com/2010/11/4/R41...t you aren't interested in assembling the full genome, just the 100 kb part you're...2164 days ago
Understanding BLASTn output format 6 !
...against DNA, for example gene sequences against a reference genomeblastn -query genes.ffn -subject genome.fna -outfmt 6 BLASTn tabula...ne) sequence id 2. sseqid subject (e.g., reference genome) sequence id 3. piden...2137 days ago