Results for "TE"
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DAGchainer: Computing Chains of Syntenic Genes in Complete Genomes
The DAGchainer software computes chains of syntenic genes found within complete ge...y along with their genome coordinates. Using a scoring function wh...ns of ordered gene pairs are computed and reported. This algorithm...lity and a Java-based graphical interface that allows the inputs a...2690 days ago
- ...of whole genomic sequences of not only bacteria but also entire chromosomes of vertebrates on a nominal desktop co...e the regions to be analyzed in the next step. The latter is devoted to de...ast and memory-efficient, but also can filter noisy outputs without missin...
2686 days ago
- ...set theory on the genome. For example, bedtools allows one tointersect, merge, count, complement, and shuffle genomic intervals from multiple files in w...
2684 days ago
ConPADE: Genome Assembly Ploidy Estimation from Next-Generation Sequencing Data
...g Ploidy and Allele Dosage Estimation), a probabilistic method that estimates the ploidy of any given cont...ethod for variant calling and allele dosage estimation. Results for simulated and real datasets are discus...2684 days ago
- ...rning more about PacBio data and bioinformatics analysis, and includes content suitable for both beginners...ining modules (webinars and PowerPoint presentations) to help you get started with your data processing, a...
2684 days ago
- ...only the required files (file masks, ls-lR parsing, recursive search, updates) has a built-in repository...n, file conversion, etc.) capable of performing multiple download or update tasks simultaneously BioDo...
2682 days ago
PBSuite: Software for Long-Read Sequencing Data from PacBio
...ery tool Both are contained within the PBSuite code found in downloads.-----...%2Fjournal.pone.0047768PBJelly is a highly automated pipeline that aligns long se...it the high mappability of long reads (i.e., greater than 10,000 bp). PBHoney con...2681 days ago
splitbam: splits a BAM by chromosomes
...erence sequence dictionary (*.dict), it also creates some empty BAM files if no s...me name): default:Unmapped -e | --empty : generate EMPTY bams for chromosome hav...records to the empty bam -p (output file/bam pattern) REQUIRED. MUST contain&nbs...2680 days ago
Laj: viewing and manipulating the output from pairwise alignment programs
...from pairwise alignment programs such as blastz. It can display interactive dotplot, pip, and text representations of the alig...ocations of exons and repeats, and annotation links to other web sites containing additional inform...2679 days ago
- ...ipeline for identifying single-base substitutions between two closely related genomes without the help of...e depth of coverage is insufficient for de novo assembly, and it can be extended to determine small insert...
2679 days ago
