wrong URLs and URIs

[matteodelucchi]

Fix the following error message

Found the following (possibly) invalid URLs:
    URL: http://aje.oxfordjournals.org/content/176/11/1051.abstract (moved to https://academic.oup.com/aje/article-abstract/176/11/1051/178588)
      From: README.md
      Status: 301
      Message: Moved Permanently
    URL: http://aje.oxfordjournals.org/content/176/11/1051.full.pdf?keytype=ref&ijkey=zCJD2Zt88XaDYyY (moved to https://academic.oup.com/aje/article-pdf/176/11/1051/428801/kws183.pdf?keytype=ref&ijkey=zCJD2Zt88XaDYyY)
      From: README.md
      Status: 301
      Message: Moved Permanently
    URL: http://download.springer.com/static/pdf/949/art%253A10.1186%252Fs12917-016-0649-0.pdf?originUrl=http%3A%2F%2Fbmcvetres.biomedcentral.com%2Farticle%2F10.1186%2Fs12917-016-0649-0&token2=exp=1455044551~acl=%2Fstatic%2Fpdf%2F949%2Fart%25253A10.1186%25252Fs12917-016-0649-0.pdf*~hmac=e04039a7400eefea35dc05635bccae1688e549b8b0eb36edc0b8fd72caba73fc
      From: README.md
      Status: 404
      Message: Not Found
    URL: http://mcmc-jags.sourceforge.net/ (moved to https://mcmc-jags.sourceforge.io/)
      From: README.md
      Status: 301
      Message: Moved Permanently
    URL: http://pdn.sciencedirect.com/science?_ob=MiamiImageURL&_cid=271186&_user=4429&_pii=S0167587711000341&_check=y&_origin=browseVolIssue&_zone=rslt_list_item&_coverDate=2011-06-15&wchp=dGLbVlS-zSkWb&md5=29522e1462a0ac05fe07c787a4cd3d0a&pid=1-s2.0-S0167587711000341-main.pdf
      From: README.md
      Status: Error
      Message: Could not resolve host: pdn.sciencedirect.com
    URL: http://web.cs.iastate.edu/~jtian/cs673/cs673_spring05/references/Friedman-Koller-2003.pdf (moved to https://faculty.sites.iastate.edu/jtian/)
      From: README.md
      Status: 301
      Message: Moved Permanently
    URL: http://www.bioconductor.org/ (moved to https://www.bioconductor.org/)
      From: README.md
      Status: 301
      Message: Moved Permanently
    URL: http://www.bioconductor.org/packages/release/bioc/html/Rgraphviz.html (moved to https://www.bioconductor.org/packages/release/bioc/html/Rgraphviz.html)
      From: README.md
      Status: 301
      Message: Moved Permanently
    URL: http://www.ete-online.com/content/10/1/4 (moved to https://link.springer.com/journal/12982)
      From: README.md
      Status: 301
      Message: Moved Permanently
    URL: http://www.r-inla.org/ (moved to https://www.r-inla.org/)
      From: README.md
      Status: 301
      Message: Moved Permanently
    URL: https://r-bayesian-networks.org/quick_start_example.html
      From: inst/doc/paper.html
      Status: Error
      Message: schannel: SNI or certificate check failed: SEC_E_WRONG_PRINCIPAL (0x80090322) - Der Zielprinzipalname ist falsch.
    For content that is 'Moved Permanently', please change http to https,
    add trailing slashes, or replace the old by the new URL.
  
  Found the following (possibly) invalid file URI:
    URI: quick_start_example.md
      From: README.md