Tag: Pybedtools

Maternal dominance contributes to subgenome differentiation in allopolyploid fishes

Otto, S. P. & Whitton, J. Polyploid incidence and evolution. Annu. Rev. Genet. 34, 401–437 (2000). Article  CAS  PubMed  Google Scholar  Van de Peer, Y., Maere, S. & Meyer, A. The evolutionary significance of ancient genome duplications. Nat. Rev. Genet. 10, 725–732 (2009). Article  PubMed  Google Scholar  Comai, L. The…

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Immune gene variation associated with chromosome-scale differences among individual zebrafish genomes

Litman, G. W., Cannon, J. P. & Dishaw, L. J. Reconstructing immune phylogeny: New perspectives. Nat. Rev. Immunol. 5, 866–879 (2005). Article  CAS  PubMed  PubMed Central  Google Scholar  Criscitiello, M. F. & de Figueiredo, P. Fifty shades of immune defense. Heitman J, editor. PLoS Pathog. 9, e1003110 (2013). Article  CAS …

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Installing pybedtools in Windows 10

Installing pybedtools in Windows 10 1 I am trying to install pybedtools in Windows 10 Jupyter Notebook but it gives me following error: Do we able to install pybedtools in Windows 10? pybedtools • 86 views No, it is not possible to use pybedtools in native windows, as it relies…

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Unable to install bioconda packages in conda environments

From your command line it appears you are on windows. There are several veresions of pybedtools on bioconda, however, if I grep through them, they are all for the linux platform. If you’re on Windows 10, you could consider setting up the ‘windows subsystem for linux’ (and possibly Xming), installing…

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bedops bedmap operation in python

bedops bedmap operation in python 1 I noticed there is a conda version of bedops bedmap function available. I’ve been struggling to use it though. Could someone refer me to any documentation of it’s usage in a python script please. Have a great day. Thanks in advance. python bedops bedmap…

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converting multiple bam files to bed

Bedtools – converting multiple bam files to bed 1 Hi all, I have previous experience in R, but since some months ago I am trying new things in Python (JupyterLab). I have a a directory with different files. Some of them are ‘.bam’ files. My objective is to obtain ‘.bed’…

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Pybedtools error sans

Pybedtools error sans 20-08-2021 pysam – Error when I install samtools for python on windows – i trying install pysam, pybedtools modules on python got error: ($i=1; $i[email protected] temp]$ conda install pysam bedtools hisat2 [ snip. However,…

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