User:Karmella Haynes/Notebook/PcTF Genomics/2012/12/13: Difference between revisions
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|style="background-color: #EEE"|[[Image:owwnotebook_icon.png|128px]]<span style="font-size:22px;">Pc-TF Genomics</span> | |style="background-color: #EEE"|[[Image:owwnotebook_icon.png|128px]]<span style="font-size:22px;">Pc-TF Genomics</span> | ||
|style="background-color: #F2F2F2" align="center"| | |style="background-color: #F2F2F2" align="center"|[[File:Report.png|frameless|link={{#sub:{{FULLPAGENAME}}|0|-11}}]][[{{#sub:{{FULLPAGENAME}}|0|-11}}|Main project page]]<br />{{#if:{{#lnpreventry:{{FULLPAGENAME}}}}|[[File:Resultset_previous.png|frameless|link={{#lnpreventry:{{FULLPAGENAME}}}}]][[{{#lnpreventry:{{FULLPAGENAME}}}}{{!}}Previous entry]] }}{{#if:{{#lnnextentry:{{FULLPAGENAME}}}}|[[{{#lnnextentry:{{FULLPAGENAME}}}}{{!}}Next entry]][[File:Resultset_next.png|frameless|link={{#lnnextentry:{{FULLPAGENAME}}}}]]}} | ||
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---- | ---- | ||
Needed items: | |||
* BAM file(s) | |||
* SeqMan NGen on a Windows machine (or in parallels) | |||
'''SeqMan workflow'''<br> | '''SeqMan workflow'''<br> | ||
# Open SeqMan NGen | # Open SeqMan NGen | ||
# In the Welcome window, select Import BAM file, click [Next >] | # In the Welcome window, select '''Import BAM file''', click [Next >] | ||
# BAM Import = Align BAM layout file, click [Next >] | # BAM Import = Align BAM layout file, click [Next >] | ||
# Set Up Project Files: Project name = some name; Project folder = SeqMan NGen Projects (desktop); Temporary file location = SeqMan NGen Projects (desktop). Click [Next >] | # Set Up Project Files: Project name = some name; Project folder = SeqMan NGen Projects (desktop); Temporary file location = SeqMan NGen Projects (desktop). Click [Next >] | ||
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View Results | View Results | ||
# Open SeqMan Pro | # Open SeqMan Pro | ||
# File > Open > navigate to a ###.assembly file in the SeqMan NGen Projects folder. File processing will take 10 - 15 minutes. | |||
# Two windows appear: (1) Report, (2) ''filename''.assembly | # Two windows appear: (1) Report, (2) ''filename''.assembly | ||
# Double click on one of the alignments in ''filename''.assembly (e.g., NC_000001(1>249240538) NC_000001), to open "Alignment of ..." window | # Double click on one of the alignments in ''filename''.assembly (e.g., NC_000001(1>249240538) NC_000001), to open "Alignment of ..." window |
Latest revision as of 22:19, 26 September 2017
Pc-TF Genomics | Main project page Previous entry Next entry |
12/13/12
Needed items:
SeqMan workflow
View Results
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