http://cran.r-project.org/web/packages/data.table/index.html
Enhanced data.frame. Fast indexing, fast ordered joins, fast assignment by reference, fast grouping and list columns in a short and flexible syntax. i and j may be expressions of column names directly, for faster development. Example: X[Y] is a fast join for large data.
http://datatable.r-forge.r-project.org/
Wednesday, January 15, 2014
Science enters $1,000 genome era
http://www.bbc.co.uk/news/science-environment-25751958
The ability to sequence a human genome for just $1,000 has arrived, a US genetic technology company has announced.
The HiSeq X Ten high throughput genetic sequencing machine was announced at the annual JP Morgan Healthcare Conference in San Francisco this week. The company said it had broken the "sound barrier" of human genomics.
The ability to sequence a human genome for just $1,000 has arrived, a US genetic technology company has announced.
The HiSeq X Ten high throughput genetic sequencing machine was announced at the annual JP Morgan Healthcare Conference in San Francisco this week. The company said it had broken the "sound barrier" of human genomics.
Monday, January 13, 2014
The Toxins of William B. Coley and the Treatment of Bone and Soft-Tissue Sarcomas
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1888599/
In 1891, William B. Coley injected streptococcal organisms into a patient with inoperable cancer. He thought that the infection he produced would have the side effect of shrinking the malignant tumor. He was successful, and this was one of the first examples of immunotherapy. Over the next forty years, as head of the Bone Tumor Service at Memorial Hospital in New York, Coley injected more than 1000 cancer patients with bacteria or bacterial products. These products became known as Coley's Toxins. He and other doctors who used them reported excellent results, especially in bone and soft-tissue sarcomas.
Despite his reported good results, Coley's Toxins came under a great deal of criticism because many doctors did not believe his results. This criticism, along with the development of radiation therapy and chemotherapy, caused Coley's Toxins to gradually disappear from use. However, the modern science of immunology has shown that Coley's principles were correct and that some cancers are sensitive to an enhanced immune system. Because research is very active in this field, William B. Coley, a bone sarcoma surgeon, deserves the title "Father of Immunotherapy."
Friday, January 10, 2014
A Field Guide to Genomics Research
http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.1001744
High-throughput technologies are enabling scientists to profile genomes, transcriptomes, proteomes, and metabolomes at an unprecedented scale[1]. All this “-omics” research (let's call it genomics for simplicity) is exciting—and game changing—but it's also fraught with dangers for the tenderfoot. Here, we've put together a brief “field guide” for those wishing to visit the genomics frontier, in which we use caricatures to illustrate various pitfalls that can beset those who inhabit this new territory. By documenting the behaviors of these common types, we hope to guide researchers in their quest to apply sound practices when designing genomics experiments and analyzing the resulting data. Many of the tendencies we have encountered are not specific to genomics research, but they are particularly acute in this field due to its interdisciplinary nature and the complexity of the data it produces.
High-throughput technologies are enabling scientists to profile genomes, transcriptomes, proteomes, and metabolomes at an unprecedented scale[1]. All this “-omics” research (let's call it genomics for simplicity) is exciting—and game changing—but it's also fraught with dangers for the tenderfoot. Here, we've put together a brief “field guide” for those wishing to visit the genomics frontier, in which we use caricatures to illustrate various pitfalls that can beset those who inhabit this new territory. By documenting the behaviors of these common types, we hope to guide researchers in their quest to apply sound practices when designing genomics experiments and analyzing the resulting data. Many of the tendencies we have encountered are not specific to genomics research, but they are particularly acute in this field due to its interdisciplinary nature and the complexity of the data it produces.
The Farmer
“Let's harvest a bunch of data and design fancy tools, and then we'll figure out what to do with them.”
...
Friday, January 3, 2014
JavaScript Code quality tool
http://www.jslint.com/lint.html
JSLint is a JavaScript program that looks for problems in JavaScript programs. It is a code quality tool.
When C was a young programming language, there were several common programming errors that were not caught by the primitive compilers, so an accessory program called
lint was developed that would scan a source file, looking for problems.
As the language matured, the definition of the language was strengthened to eliminate some insecurities, and compilers got better at issuing warnings.
lint is no longer needed.Thursday, January 2, 2014
IBM ThinkPad Laptop Keyboard not working
Problem: When you type "p" a "/" shows up, "U" becomes "4", etc.
Fix: Fn + ScrLk
http://en.kioskea.net/forum/affich-101274-laptop-keyboard-problem
Fix: Fn + ScrLk
http://en.kioskea.net/forum/affich-101274-laptop-keyboard-problem
Tuesday, December 31, 2013
Happiness
It’s not goal attainment, but the process of striving after goals – that is, growth – that brings happiness. -- Happier at Home
Making better inferences from statistical graphics Edward Tufte
http://www.edwardtufte.com/bboard/q-and-a-fetch-msg?msg_id=0003wa#!
http://pps.sagepub.com/content/7/6/645.full
http://pps.sagepub.com/content/7/6/645.full
Why Science Is Not Necessarily Self-Correcting
| The ability to self-correct is considered a hallmark of science. However, self-correction does not always happen to scientific evidence by default |
Monday, December 30, 2013
Dan Gilbert: The surprising science of happiness
http://www.ted.com/talks/dan_gilbert_asks_why_are_we_happy.html#!
The lesson I want to leave you with from these data is that our longings and our worries are both to some degree overblown, because we have within us the capacity to manufacture the very commodity we are constantly chasing when we choose experience.
The lesson I want to leave you with from these data is that our longings and our worries are both to some degree overblown, because we have within us the capacity to manufacture the very commodity we are constantly chasing when we choose experience.
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