Results for "reads"
Top-level pages
Useful Publications and Websites for Deep Sequencing Data Analysis
...Compression of DNA sequence reads in FASTQ format. Deorowicz &a...FASTX-toolkit: FASTQ/A short-reads pre-processing tools Home Pag...n FM-index of the 1.2 billion reads] Readjoiner: a fast and memo...sis of the resulting sequence reads.] Genotyping by sequencing...3764 days ago
List of generic simulation software/tools/resource with brief description and homepage !!!
...unt.sourceforge.net/MetaSim A tool to generate collections of synthetic reads that reflect the diverse taxo...e evolution http://bit.ly/rlsim-gitpIRS Profile-based Illumina pair-end reads simulator https://code.google...3722 days ago
List of In-silico Binding Site Prediction Tools
...xis is composed of surface patches. It is designed to analyze proteins channels, calculate pore dimensions and analyze atom accessibility. MolAxis reads files in the standard Protein...3729 days ago
Next generation sequencing in R or bioconductor environment
...cing technologies, this package is primairly focused on Solexa/Illumina reads. Documentation Rsamtools Rs...tifies enriched regions by modeling local concentrations of directional reads, and uses DNA fragment length...3609 days ago
Commercial and public next-gen-seq (NGS) software
...lter snps, do statistics for: reads, contigs and snps. Align/As...It quickly aligns millions of reads either with ungapped or gappe...ynamatix. Will align Illumina reads against a range of Refseq RNA...ification from Short Sequence Reads. BED file input. Raja Jothi @...3504 days ago
Software packages for next gen sequence analysis
...t aligns short DNA sequences (reads) to the human genome at a rat...It quickly aligns millions of reads either with ungapped or gappe...Assembles 20 - 64 bp Illumina reads to a FASTA reference genome....ut 20-25X coverage and paired reads. Developed by Daniel Zerbino...3227 days ago
- ...rpose tool designed for converting reads or other nucleotide data betw...ubsampling (to a fraction of input reads, or an exact number of reads...n=x.fq out=y.fa Interleave paired reads: reformat.sh in1=x1.fq in2=x2...path/to/bbmap/current/ jgi.ReformatReads" for example, java -ea -Xmx20...
2699 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...tion to Sanger sequence data, reads from these high-throughput se...ats, users must also give raw reads in Fasta or Fastq Reference...tifies indels from paired-end reads Input: BAM (aligned in SAMto...n do single, de novo, somatic reads; requires that raw reads are...2893 days ago
Tools for Searching Repeats And Palindromic Sequences
...alindrome would be the sequence 5' CGAAGC 3' that, when reversed, still reads CGAAGC. Palindromes are impo...mple, the sequence 5' CGAAGC 3', if inverted (reversed 180°), still reads CGAAGC. The European Molecul...2196 days ago
- ...software for aligning raw sequence reads to a reference genome. BAM F...e is very low probability that the reads in your sample support a TT g...read-depth: the number of sequence reads that pile up at the same geno...ry. Alignment Mapping of sequence reads to a known reference sequence...
2854 days ago
