I need to install Haploview so as to produce a Manhattan plot (summarise the output of my association analysis).
I however can't seem to reach the broad Institute website.
Any one know how else I could progress?
Are you sure that the local firewall or security settings are not blocking access to broad institute website? Have you tried accessing the webpage from a different computer and/or different internet browser?
Thank you. It was a block from my computer.
Thank you all. I have succeeded with R. For some reason the haploview.jar has failed for me
Alternatively, you can use R to create Manhattan plots:
Worked for me too. Thank you
Works for me, so Sej’s suggestion of your local firewall or similar is probably right on the money:
$ wget https://www.broadinstitute.org/ftp/pub/mpg/haploview/Haploview.jar
--2018-09-25 12:03:58-- https://www.broadinstitute.org/ftp/pub/mpg/haploview/Haploview.jar
Resolving www.broadinstitute.org www.broadinstitute.org)... 220.127.116.11, 18.104.22.168
Connecting to www.broadinstitute.org www.broadinstitute.org)|22.214.171.124|:443... connected.
HTTP request sent, awaiting response... 301 Moved Permanently
Location: ftp://ftp.broadinstitute.org/pub/mpg/haploview/Haploview.jar [following]
--2018-09-25 12:03:58-- ftp://ftp.broadinstitute.org/pub/mpg/haploview/Haploview.jar
Resolving ftp.broadinstitute.org ftp.broadinstitute.org)... 126.96.36.199
Connecting to ftp.broadinstitute.org ftp.broadinstitute.org)|188.8.131.52|:21... connected.
Logging in as anonymous ... Logged in!
==> SYST ... done. ==> PWD ... done.
==> TYPE I ... done. ==> CWD (1) /pub/mpg/haploview ... done.
==> SIZE Haploview.jar ... 5300252
==> PASV ... done. ==> RETR Haploview.jar ... done.
Length: 5300252 (5.1M) (unauthoritative)
0% [ ] 21,224 76.0K/s
100%[====================================================================================================>] 5,300,252 1.97M/s in 2.6s
2018-09-25 12:04:02 (1.97 MB/s) - `Haploview.jar' saved 
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