RE: asciinema.org (Linux/MacOS) It may be nice to share/show commands being typed on a Text Terminal and embed this simple “movie” within blog or HTML page. It seems that the recording gets uploaded to their web site… Since it’s all text-based the file should be rather small and the clarity of replay very good compared… Read More »
Re: pythonhosted.org/omics_pipe Next Gen. data analysis requires many steps, that can be learned one by one, for example running an aligner such as bowtie, tophat or STAR, then handle the SAM/BAM file for subsequent analysis. Once the various steps are understood and if there are new analyzes do be performed routinely, it would be “nice”… Read More »
Re:alternativeto.net What software one uses may be the result of colleague recommendations, using “what others use in the lab,” or haphazardly found options online. Or perhaps it is time to “upgrade” a commercial package and the steep price makes you think twice… The crowdsources software recommendation web site alternativeto.net does just that… just enter the name… Read More »
Re: omictools.com Finding software that is relevant to any biological analysis can be inspired by reading a paper or perhaps searching within Google. The web site https://omictools.com/ contains 16,971 software (omic) tools that are organized in categories shown on the home page. Checking a bit further one can find interesting entries such as: High-throughput sequencing data analysis…… Read More »
This recent paper deals with the “space of infinite possibilities” of ChIP-Seq data analysis, focusing on challenges of differential binding analysis. They have underlined multiple challenges in this area (Introduction, page 2) and compared 14 software packages, using both real-world and simulated datasets. The observed differences between the results obtained with different methods were not… Read More »
Last week PNAS has published something which would apparently contribute to future textbooks: Mobile small RNAs regulate genome-wide DNA methylation. You think that cutting / physical joining of different plants (grafting) will leave their genomes unaffected, right? Think twice! Authors show that mobile RNA travels between the two species and regulate methylation level of thousands… Read More »