BOL: All Site Activity

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- Jit@jit.aber
Jit commented on a bookmark The Raku Programming Language 1753 days ago

Interesting read https://perl6advent.wordpress.com/tag/bioinformatics/
- Jit@jit.aber
Jit commented on a bookmark The Raku Programming Language 1753 days ago

Raku module for Bioinformatics https://github.com/MattOates/BioInfo
- Jit@jit.aber
Jit commented on a bookmark The Raku Programming Language 1753 days ago

Light-weight Raku packages for web development. Let's watch: https://github.com/Bailador/Bailador
- Jit@jit.aber
Jit commented on a bookmark The Raku Programming Language 1753 days ago

Now we finally have an IDE for Raku now: https://commaide.com/
- Jit@jit.aber
Jit answered the question How to check the line begin with ">" in a file using Raku lang ? 1753 days ago

Following line will do tha magic in Raku: next if $line.stars-with('>')
- Rahul Nayak@rahul
Rahul Nayak created a new bio-script Perl script to delete the adjacent repeats ! 1753 days ago
- Rahul Nayak@rahul
Rahul Nayak asked How to check the line begin with ">" in a file using Raku lang ? 1753 days ago

How to check if the line begin with "#" or ">" etc in Raku aka perl6
- Jit@jit.aber
Jit commented on the bio-script Install Zef for Raku ! 1753 days ago

# smoke test modules from all repositories zef smoke # run Build.pm if one exists in given path zef build . # update Repository package lists zef update # upgrade all distributions (BETA) zef upgrade # list all available...

Jit created a new bio-script Install Zef for Raku ! 1753 days ago

Comments

Jit 1753 days ago

# smoke test modules from all repositories
zef smoke

# run Build.pm if one exists in given path
zef build .

# update Repository package lists
zef update

# upgrade all distributions (BETA)
zef upgrade

# list all available distributions
zef list

# search for distribution names matching `CSV`
zef search CSV

- Jit@jit.aber
Jit created a new bio-script Install Raku on Ubuntu ! 1753 days ago
- Jit@jit.aber
Jit posted to the wire 1753 days ago

User can download “fetchChromSizes” from http://hgdownload.cse.ucsc.edu/admin/exe/ #Chr #Genome #Download
- Neel@neelam
Neel commented on the blog Various scholarships around the world !! 1753 days ago

The Start-up Research Grant (SRG) scheme aims to assist researchers to initiate their research career in a new institution. It is a two-year grant meant to enable researchers working in frontier areas of science and engineering to establish...
- BioStar@biostar
BioStar bookmarked MEC: Contig Misassembly Correction 1754 days ago

MEC, to identify and correct misassemblies in contigs. Firstly, MEC takes fragment coverage as the feature to detect the candidate misassemblies. Then, it can distinguish a large number of false positives from the candidate misassemblies based on...

https://github.com/bioinfomaticsCSU/MEC
- BioStar@biostar
BioStar bookmarked Tadpole: an assembler, error-corrector, and read-extender 1754 days ago

Tadpole is a kmer-based assembler, with additional capabilities of error-correcting and extending reads. It does not do any complicated graph analysis or scaffolding, and therefore, is not particularly good for diploid organisms. Tadpole is...

https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/tadpole-guide/
- BioStar@biostar
BioStar bookmarked QuorUM: An Error Corrector for Illumina Reads 1754 days ago

We produce trimmed and error-corrected reads that result in assemblies with longer contigs and fewer errors. We compared QuorUM against several published error correctors and found that it is the best performer in most metrics we use. QuorUM is...

http://www.genome.umd.edu/
- BioStar@biostar
BioStar bookmarked Musket - a multistage k-mer spectrum based corrector 1754 days ago

Musket is a well-established leading next-generation sequencing read error correction algorithm targetting Illumina sequencing. This corrector employs the k-mer spectrum approach and introduces three correction techniques in a multistage...

http://musket.sourceforge.net/homepage.htm
- BioStar@biostar
BioStar bookmarked Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads 1754 days ago

Rcorrector has an accuracy higher than or comparable to existing methods, including the only other method (SEECER) designed for RNA-seq reads, and is more time and memory efficient. With a 5 GB memory footprint for 100 million reads, it can be run...

https://github.com/mourisl/Rcorrector/
- Jit@jit.aber
Jit commented on the news Complete genome sequence of Wuhan seafood market pneumonia virus is out ! 1754 days ago

CBI teams at GenBank®, the Sequence Read Archive (SRA), NCBI Virus, and BLAST continue to rapidly process and release data associated with this outbreak as it becomes available. We also have a dedicated BLAST search page for...
- Jit@jit.aber
Jit commented on the news New Layout for BLAST ftp Database Site 1754 days ago

The transition to the new default database version, dbV5, for BLAST+ is now complete. For more details please see Blog. Team also uploaded a 2019-nCoV Sequences (Wuhan coronavirus) database to our FTP site, labeled...
- Jit@jit.aber
Jit posted to the wire 1754 days ago

Eye catchy graphs https://bl.ocks.org/ #JS #Java #Scripts

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