Results for "repeat-aware"
Blogs
Five points for bioinformatics software/tools
In the bioinformatics sector we mostly spend time on computational analysis of huge amounts of data and try to make sense of it, biologically. But, most of the newbie bioi...3719 days ago
Bioinformatics PhDs - Cover Letter
OverviewThe reception your cover letter will receive is more varied and unpredictable than the other elements of your application packet. Some readers, especially at...3378 days ago
- +2 more Blogs
Bookmarks
SATSUMA : Highly sensitive whole-genome synteny alignments.
Satsuma is a whole-genome synteny alignment program. It takes two genomes, computes alignments, and then keeps only the parts that are orthologous, i.e. following the cons...2926 days ago
Bioinformatics tools and software
USEARCH >Extreme high-throughput sequence analysis. Orders of magnitude faster than BLAST. MUSCLE >Multiple sequence alignment. Faster and more accurate than CL...2873 days ago
- +25 more Bookmarks
Files
- DOWNLOAD LINK: https://github.com/BioInf-Wuerzburg/proovread/raw/master/util/blasr-1.3.1/blasr I'm running "OPERA-LG_v2.0.5/bin/preprocess_reads.pl" and have the followin...
2163 days ago
Pages
Genome Assembly Tools and Software - PART2 !!
The genome assemblers generally take a file of short sequence reads and a file of quality-value as the input. Since the quality-value file for the high throughput short re...2697 days ago
Awesome perl frameworks, libraries and software - PART 2
licheng/gccfilter - gccfilter is a perl filter to colorize and simplify (or expand) gcc diagnostic messages. gccfilter is particularly aimed at g++ (i.e. dealinging...2506 days ago
Top-level pages
Useful Publications and Websites for Deep Sequencing Data Analysis
...errors in a mixed set of reads. Salmela, Bioinformatics 26(10):1284, 2010. Full Text [includes error correction of SOLiD reads in colorspace] Repeat-aware modeling and correction of sh...3791 days ago
Commercial and public next-gen-seq (NGS) software
Integrated solutions CLCbio Genomics Workbench - de novo and reference assembly of Sanger, Roche FLX, Illumina, Helicos, and SOLiD data. Commercial next-gen-seq software t...3531 days ago
- +10 more Top-level pages
Wire posts
News
- Webinar on Unique Molecular Identifier-powered Ultra-sensitive Variant Calling using Strand NGS - Case Study by Dr. Pandurang Kolekar, Bioinformatics Engineer, Stran...
2383 days ago
SPADes team announce new version SPADes v3.15
New SPAdes 3.15.0.0. announced by the SPADes team This release includes such new features as: - CoronaSPAdes pipeline for the assembly of transcriptomic and metatrans...1218 days ago
Opportunity posts
Sr.Bioinformatics Analyst (NGS) at Ocimum Biosolution
“Ocimum Biosolution” is a comprehensive Integrated Life Science Informatics solutions provider with service offerings that span Sample and Data Management (LIMS, Biologics...3471 days ago
Sr.Bioinformatics Analyst (NGS) @ OcimumBio
Sr.Bioinformatics Analyst (NGS) Experience Required: 3-5 years of experience No of Positions : Multiple Qualifications: Candidates with minimum qualification as M.Sc...2937 days ago
- +1 more Opportunity posts
Bio-Scripts
Install Parrot Virtual Machine !
#Parrot is a virtual machine designed to efficiently compile and execute bytecode for dynamic languages jit@jit-HP-Pro-3335-MT:~/Downloads/parrot-8.1.0$ wget ftp://ftp....1549 days ago
Pack a perl program with their dependencies on Ubuntu !
#Follow steps to create your own executable ./web jit@jit-HP-Pro-3335-MT:~/Downloads/autoConTAMPR/bin$ sudo apt install libpar-packer-perl Reading package lists... Don...1523 days ago
- +5 more Bio-Scripts
Tags
repeat-aware: Repeat aware scaffolding evaluation framework by Igor Mandric
Genome scaffolding is a classical challenging problem in bioinformatics. It refers to joining assembly contigs into chains (called scaffolds). The join between two contigs A and B is considered correct if: Their relative orientation is correct Their relative order is correct The gap estimate...Tags: Repeat, aware, scaffolding, evaluation, framework, Igor, Mandric, repeat-aware
2248 days ago
FinisherSC:a repeat-aware tool for upgrading de novo assembly using long reads
Here is the command to run the tool: python finisherSC.py destinedFolder mummerPath If you are running on server computer and would like to use multiple threads, then the following commands can generate 20 threads to run FinisherSC. python finisherSC.py -par 20 destinedFolder mummerPath S...Tags: FinisherSC, repeat-aware, tool, upgrading, de novo, assembly, long, reads
2097 days ago
