Five points for bioinformatics software/tools
...of the need to actually read and research the type of analysis that you are doing. This is particularly true in the case of genome assembly and annotation. At the end, I would like to...3703 days ago
Tools to detect synteny blocks regions among multiple genomes
...of study species by comparing to a well annotated reference sequence, thus enabling genome curators to refine and edit annotations of species that have incomplete genome annotations. Sibelia (http://arxiv.org/...2606 days ago
Next Generation Sequencing (NGS) Tutorials
...12/134/abstract WEP: a high-performance analysis pipeline for whole-exome data http://www.biomedcentral.com/1471-2105/14/S7/S11 DDBJ read annotation pipeline: a cloud computing-b...3483 days ago
Public Databases for Bioinformatics !
...ssible data should store common data here e.g. genomes and indexes, annotations, ENCODE data if you dont...iles/ENCFF177HHM/@@download/ENCFF177HHM.bam as we as the GENCODE annotation v29 from ftp://ftp.ebi.a...1135 days ago
Bioinformatics approach to Boar Taint
...ller tool. A final list of SNPs was prepared after filtering SNPs on the basis of SNP quality, coverage of SNP allele, functional and structural annotation, and repeats, etc. Selected S...3785 days ago
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Genome Assembly Tools and Software - PART2 !!
...correcting sequence errors and transferring annotation. ShoRAH 0.8.2 – Short...n-reading frames and taxonomic or functional annotations. TIGER – DNA Sequence...is a pipeline for the automated assembly and annotation of microbial genomes from hig...2681 days ago
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Conserved Domain Database (CDD) version 3.11 released
...2.28 and up) using composition-based scoring. This abolishes the need to mask out compositionally biased regions in query sequences; Domain annotation displays in CD-Search, BATCH...3723 days ago
A comprehensive atlas of human gene activity released !!!
...journals. The work is the result of years of concerted effort among 250 experts from more than 20 countries as part of FANTOM 5 (Functional Annotation of the Mammalian Genome). The...3528 days ago
Research Fellow @ Mendel laboratory
...ojects, dealing with microarrays, RNA-Seq and miRNA-Seq data. Main activities will be: (i) data analysis (short-reads mapping, variants call and annotation, functional enrichment analys...3809 days ago
Visiting Scientist - Computational Genomics (two positions)
...Genome wide association study (GWAS) related analysis- LD analysis, hapmap and trait mapping Expression analysis based on RNA-Seq data, annotation, gene ontology and metabolic...3585 days ago
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get GC across the entire CDS !
#look at GC across the entire CDS. gffread -x - -g | \ seqtk comp - | \ awk -v OFS="\t" '{ print $1, "0", $2, ($4 + $5) / $2 }'1389 days ago
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R package for visualising GO enrichment
An R package that visualizes the GO enrichment results as word clouds and arranges them together with figures of experimental data. This allows us to draw informative summary plots for analyses such as differential expression or clustering, where for each gene list we display its behaviour in the...Tags: R, GO, Gene Enrichments, Clustering, GO annotation, CRAN
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Comment on "How to install Perl modules manually, using CPAN command, and other quick ways"
To install BioPerl on a macOS system, you can follow these steps: Open the Terminal app on your macOS system. Install Homebrew if you haven't already...418 days ago
Comment on "Tools to detect synteny blocks regions among multiple genomes"
...rest. Obtain the genome sequences: Download the genome sequences of the selected species from a public database, such as NCBI or Ensembl. Gene annotation: Annotate the genes in each g...419 days ago