Results for "short reads mapping"
Top-level pages
When you have both Illumina and Nanopore data, then SPAdes remain...file with forward paired-end reads -2 <filename>...me> file with forward reads for mate-pair library number...duce number of mismatches and short indels --continue...not to compress the corrected reads...2365 days ago
- RNA-sequencing (RNA-seq) has a wide variety of applications, but no single analysis...ion, alternative splicing, functional analysis, gene fusion detection and eQTL mapping. A survey of best practices...
2364 days ago
Tools for bacterial whole genome annotation
RAST – Web tool (upload contigs), uses the subsystems in the SEED database and provides detai...ntigs and estimates the sizes of gaps between them; (ii) IMAGE uses paired-end reads t...2345 days ago
Run miniasm assembler on nanopore reads !
Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap...r-base error rate is similar to the raw input reads. Find the detail of the reads...2344 days ago
BBSplit: Read Binning Tool for Metagenomes and Contaminated Libraries
BBSplit internally uses BBMap to map reads to multiple genomes at once,...ns an exact repeat somewhere, reads mapping to it will be mapped ambigu..., either quantifying how many reads go to each reference, or splitt...file for each of them. Paired reads will always be kept together.Fo...2328 days ago
- There are several ways you can convert fastq to fasta sequences. Some methods are listed below....r many purposes. One such use is fastq-fasta conversion seqret -sequence reads.fastq -outseq reads.f...
2319 days ago
List of visualization tools for network biology
Network analysis is any structured technique used to mathematically analyze a c...es http://www.cs.helsinki.fi/group/sysfys/software/rematch/ SNOW Gene mapping on a reference or human prote...2302 days ago
List of visualization tools for genome alignments
...or.htm JVM Java Visual Mapping tool for NGS reads http://www.springer.com/cda/...Viewer Visualization of short read alignment, identificatio...-scale single-end and pair-end short reads http://omictools.com/mapview-s...gv/ ZOOM Lite NGS data mapping and visualization software h...2297 days ago
Awk for Bioinformatician and computational biologist
Awk is a programming language which allows easy manipulation of structured data and is...tions}' file The working of Awk is as followsAwk reads the input files one line at a...after the last block {} to print everything (1 is a shortha...2293 days ago
Some useful Bioinformatics links
Reference-free prediction of rearrangement breakpoint reads | Bioinformatics | Oxford Aca...05-15-302 Fast and sensitive mapping of nanopore sequencing reads with GraphMap | Nature Commun...ols.html How To Filter Mapped Reads With Samtools https://www.bios...2255 days ago
