Results for "SNPs"
Top-level pages
Useful Publications and Websites for Deep Sequencing Data Analysis
...mer software for full-genome alignment & comparisons] Searching for SNPs with cloud computing. Langmead et al, Genome Biol 10(11):R134, 2009 Full Text Calling SNPs without a reference sequence....3781 days ago
List of generic simulation software/tools/resource with brief description and homepage !!!
...2 GenomePop2 is a specialization of the program GenomePop just to manage SNPs under more flexible and usefu...oods and instantaneous rate matrices. http://www.cibiv.at/software/sissi/SNPsim Coalescent simulation of ho...3738 days ago
Commercial and public next-gen-seq (NGS) software
...files, clean and filter contigs, look for snps and indels., filter snps, do statistics for: reads, co.... The updated version uses a BWT. Can call SNPs and INDELs. Author is Ruiqian...hism detection tool. It detects homozygous SNPs and indels by aligning shotgu...3520 days ago
Apps for Busy Bioinformatics Researchers !!!
...SNPdbe: iPhone/iPad SNPdbe — SNP database of effects, with predictions of computationally annotated functional impacts of SNPs. Database entries represent nsSNPs in dbSNP and 1000 Genomes col...3542 days ago
Software packages for next gen sequence analysis
...tides onto reference sequences. The updated version uses a BWT. Can call SNPs and INDELs. Author is Ruiqian...haSNP - ssahaSNP is a polymorphism detection tool. It detects homozygous SNPs and indels by aligning shotgu...3244 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...FreeBayes Description: finds SNPs, Indels, MNPs; reports varian...specializes in separation of true SNPs and indels from sequencing an...mmand-line application to identify SNPs between tumor/normal pairs- p...Output: File containing annotated SNPs is copied from SNP list and s...2910 days ago
Genome Assembly Tools and Software - PART1 !!
...ation in the tex directory). The assembly does not only encode SNPs and short INDELs, but also re...of a genome assembly and validating polymorphism candidate sites (e.g., SNPs) reported by polymorphism dis...2687 days ago
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
...https://github.com/danielnavarrogomez/phy-mer LAVA Genotyping of known SNPs (dbSNP and Affymetrix's Genom...rence-free SNP identification and estimation of phylogenetic trees using SNPs (based on k-mer analysis...2372 days ago
Some useful Bioinformatics links
...ealing with the data deluge https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4083407/ GATB/DiscoSnp: DiscoSnp is designed for discovering all kinds of SNPs (not only isolated ones), as...2243 days ago
My commonly used commands in Bioinformatics
...sembly.fasta nucmer -p nucmer assembly.fasta racon_assembly.fasta show-snps -C -T -r nucmer.delta This...table. You can exclude indels with the -I option in show-snps. This process (Racon -...2111 days ago
