|
Last change
on this file was
19708,
checked in by westram, 3 months ago
|
- update doc+gui:
- avoid terms "ARB_NT" (=former name of main arb window), "ARB_NTREE" and similar
- instead talk about "ARB main window"
- correct refs to 'ARB/Probes/PT_SERVER Admin'.
- update 'What are marked species?'.
- update protection level documentation (parts already done with previous commit).
|
-
Property svn:eol-style set to
native
-
Property svn:keywords set to
Author Date Id Revision
|
|
File size:
1.5 KB
|
| Line | |
|---|
| 1 | # main topics: |
|---|
| 2 | UP arb.hlp |
|---|
| 3 | UP glossary.hlp |
|---|
| 4 | UP pt_server.hlp |
|---|
| 5 | |
|---|
| 6 | # sub topics: |
|---|
| 7 | SUB probe_param.hlp |
|---|
| 8 | SUB probedesignresult.hlp |
|---|
| 9 | |
|---|
| 10 | # format described in ../help.readme |
|---|
| 11 | |
|---|
| 12 | |
|---|
| 13 | TITLE Probe Design |
|---|
| 14 | |
|---|
| 15 | OCCURRENCE ARB/Probes/Design Probes |
|---|
| 16 | |
|---|
| 17 | |
|---|
| 18 | DESCRIPTION Searches for potential probe target sites within the sequence |
|---|
| 19 | entries of the selected 'PT_SERVER' database. |
|---|
| 20 | |
|---|
| 21 | First mark (a single or a group of) species (see LINK{mark.hlp}) |
|---|
| 22 | for which probe target sites should be designed. |
|---|
| 23 | |
|---|
| 24 | Configure the parameters (see LINK{probe_param.hlp}) |
|---|
| 25 | and press 'GO' to start the probe design. |
|---|
| 26 | |
|---|
| 27 | NOTES The 'PT_SERVER' database ('*.arb' and '*.arb.pt') stored in |
|---|
| 28 | '$ARBHOME/lib/pts' is used for probe target searching |
|---|
| 29 | (not the current database!). |
|---|
| 30 | |
|---|
| 31 | The 'PT_SERVER' database has to be up-to-date or result |
|---|
| 32 | calculated by probe design will be inaccurate (see LINK{probe_param.hlp}). |
|---|
| 33 | |
|---|
| 34 | EXAMPLES None |
|---|
| 35 | |
|---|
| 36 | |
|---|
| 37 | WARNINGS Take care that only and all species are marked for which a group |
|---|
| 38 | specific probe has to be designed! If the displayed tree is used |
|---|
| 39 | for species marking, consider that species belonging to the |
|---|
| 40 | specificity group but not contained in this tree will remain |
|---|
| 41 | unmarked and treated as non-targets. |
|---|
| 42 | |
|---|
| 43 | Consequently, useful target sites may be not detected. |
|---|
| 44 | Similarly marked species not related to the target species and |
|---|
| 45 | not contained in the displayed tree will be treated as targets. |
|---|
| 46 | |
|---|
| 47 | BUGS No bugs known |
|---|
Note: See
TracBrowser
for help on using the repository browser.
