<div dir="ltr"><div class="gmail_default" style="font-family:arial,helvetica,sans-serif">BTW, I would like to remind everyone that please leave a review at <a href="http://amazon.com">amazon.com</a> if you have read the book. This is very important for the promotion of the book especially for the first few months.</div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif">Cheers,</div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif">Bo</div><div class="gmail_default" style="font-family:arial,helvetica,sans-serif"><br></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Tue, Jul 7, 2015 at 10:19 AM, Tommy Carstensen <span dir="ltr"><<a href="mailto:tommy.carstensen@gmail.com" target="_blank">tommy.carstensen@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Tiago, congratulations on your book. I already have "Bioinformatics<br>
Programming Using Python", but it's quite dated. I will buy your book.<br>
<div class="HOEnZb"><div class="h5"><br>
On Tue, Jul 7, 2015 at 3:16 PM, Bo Peng <<a href="mailto:ben.bob@gmail.com">ben.bob@gmail.com</a>> wrote:<br>
> Hi, Tiago,<br>
><br>
> Congratulations on the publication of the book! I wrote one and know how<br>
> much it takes to write a book. I am getting a copy right now.<br>
><br>
> Cheers,<br>
> Bo<br>
><br>
> On Jul 7, 2015 6:42 AM, "Tiago Antao" <<a href="mailto:tra@popgen.net">tra@popgen.net</a>> wrote:<br>
>><br>
>> Dear all,<br>
>><br>
>><br>
>> I would like to announce "Bioinformatics with Python Cookbook" which I<br>
>> authored. As you might imagine Biopython is discussed heavily in the<br>
>> book.<br>
>><br>
>> This book is slightly different from the standard books on<br>
>> Bioinformatics and Python. It is not about teaching Bioinformatics<br>
>> algorithms, but about solving practical day-to-day problems with<br>
>> Python, for example:<br>
>><br>
>> Next-Generation Sequencing: FASTQ, BAM and VCF processing. Along with<br>
>> filtering of datasets.<br>
>><br>
>> Genomics: processing reference genomes of both high-quality references<br>
>> of model species and low-quality non-model species. Also discussed are<br>
>> genome annotations and gene ontologies.<br>
>><br>
>> Population Genetics: doing PCA, Admixture/Structure, computing FSTs, ...<br>
>><br>
>> Genome simulation: mostly forward-time simulations, but also a bit of<br>
>> coalescent<br>
>><br>
>> Phylogenetics: tree reconstruction and tree drawing<br>
>><br>
>> Proteins: PDB processing and visualization.<br>
>><br>
>> Other topics like processing map data, GBIF, interfacing with<br>
>> Cytoscape, accessing lots of online databases, ...<br>
>><br>
>> There is a bit on interacting with R/Bioconductor via Python.<br>
>><br>
>> Finally we discuss high-performance in Python: faster algorithms,<br>
>> clusters, Numba and Cython. Also related technologies like Docker<br>
>><br>
>> The book discusses the usual Python Libraries in the field: Biopython,<br>
>> PyVCF, Pysam, simuPOP, DendroPy, Pymol and also scientific libraries<br>
>> like NumPy, SciPy, matplotlib and scikit-learn.<br>
>><br>
>> The code is fully available for free at github<br>
>><br>
>> <a href="https://github.com/tiagoantao/bioinf-python/blob/master/notebooks/Welcome.ipynb" rel="noreferrer" target="_blank">https://github.com/tiagoantao/bioinf-python/blob/master/notebooks/Welcome.ipynb</a><br>
>><br>
>> I am keen on maintaining the book code, so if you find any issues<br>
>> please do contact me.<br>
>><br>
>> The book is available in the usual places (Amazon, etc.) in paperback<br>
>> and e-book format. The web page of the book is<br>
>><br>
>> <a href="https://www.packtpub.com/application-development/bioinformatics-python-cookbook" rel="noreferrer" target="_blank">https://www.packtpub.com/application-development/bioinformatics-python-cookbook</a><br>
>><br>
>> Regards,<br>
>> Tiago<br>
>> _______________________________________________<br>
>> Biopython mailing list - <a href="mailto:Biopython@mailman.open-bio.org">Biopython@mailman.open-bio.org</a><br>
>> <a href="http://mailman.open-bio.org/mailman/listinfo/biopython" rel="noreferrer" target="_blank">http://mailman.open-bio.org/mailman/listinfo/biopython</a><br>
><br>
><br>
> _______________________________________________<br>
> Biopython mailing list - <a href="mailto:Biopython@mailman.open-bio.org">Biopython@mailman.open-bio.org</a><br>
> <a href="http://mailman.open-bio.org/mailman/listinfo/biopython" rel="noreferrer" target="_blank">http://mailman.open-bio.org/mailman/listinfo/biopython</a><br>
</div></div></blockquote></div><br></div>