Results for "long reads"
Top-level pages
Phylogenetic for Bioinformatics
Biologists estimate that there are about 5 to 100 million species of organisms living on Earth today. Evidence fro...lly through phylogenetic trees. Due to the fact that evolution takes place over long...3943 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
Global overview papers Next gener...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...3776 days ago
List of generic simulation software/tools/resource with brief description and homepage !!!
...generate collections of synthetic reads that reflect the diverse tax...RS Profile-based Illumina pair-end reads simulator https://code.googl...r Simulation of protein evolution along phylogenies under structure-ba...n of molecular sequence evolution along phylogenetic trees. http://tre...3734 days ago
List of In-silico Binding Site Prediction Tools
...n by Murad Nayal, was dependent on the obsolete Irix platform and is no longer available. Screen2 was reen...nels, calculate pore dimensions and analyze atom accessibility. MolAxis reads files in the standard Protein...3740 days ago
Perl one-liner for bioinformatician !!!
With the emergence of NGS technologies, and sequencing data most of the bioinformatici...”)[rand 4] } 1..20'#Generates a 20 nucleotide long random residue.perl -le 'prin...'#generate a string of ‘x’ 50 character longp...3625 days ago
Next generation sequencing in R or bioconductor environment
...ackage is primairly focused on Solexa/Illumina reads. Documentation Rsamtools R...y modeling local concentrations of directional reads, and uses DNA fragment length...nbsp;Plotting data and annotation information along genomic coordinates HilbertVis...3621 days ago
Commercial and public next-gen-seq (NGS) software
Integrated solutions CLCbio Genomi...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 @...3515 days ago
Software packages for next gen sequence analysis
Integrated solutions * CLCbio Geno...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...3239 days ago
- ...q out=y.fa Interleave paired reads: reformat.sh in1=x1.fq in2=x2...reformatting a file with very long sequences, Reformat will need...ividual sequences over 200Mbp long) to 70 characters: reformat.sh...to/bbmap/current/ jgi.ReformatReads" for example, java -ea -Xmx20...
2710 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...tifies indels from paired-end reads Input: BAM (aligned in SAMto...n do single, de novo, somatic reads; requires that raw reads are...LAST against UniProt and PDB along with homology modeling Input:...positions of a disease locus along a marker), and ilink (estimate...2905 days ago
