Athurva Gore/LabNotes/2010-1-7: Difference between revisions
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>Ajgore (New page: =PGP= * If we only use data from October or newer, we have the following data sets: * Need to find the mapping rate for each one; can guess its usefulness in the data set this way. * Shou...) |
>Ajgore (→PGP) |
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=PGP= | =PGP= | ||
* If we only use data from October or newer, we have the following data sets: | * If we only use data from October or newer, we have the following data sets: | ||
** HL013 | |||
** HL024 | |||
** HL025 | |||
** HL029 | |||
** HL019 | |||
** HL014 | |||
** HL028 | |||
** HL015 | |||
** HL027 | |||
** HL030 | |||
** AL006 | |||
* Need to find the mapping rate for each one; can guess its usefulness in the data set this way. | * Need to find the mapping rate for each one; can guess its usefulness in the data set this way. | ||
* Should we incorporate older reads? | ** Should we incorporate older reads? | ||
* Map one lane from each flowcell to get a general idea of mapping rate. | |||
** Fill in the below table: | |||
{| {{table border=1}} | |||
| align="center" style="background:#f0f0f0;"|'''Flowcell''' | |||
| align="center" style="background:#f0f0f0;"|'''Lane''' | |||
| align="center" style="background:#f0f0f0;"|'''Number of Reads''' | |||
| align="center" style="background:#f0f0f0;"|'''Mapped Reads''' | |||
| align="center" style="background:#f0f0f0;"|'''Mapped Downsampled Reads''' | |||
|- | |||
| HL013||1||59491092|||| | |||
|- | |||
| HL014||6||47862784|||| | |||
|- | |||
| HL015||1||53717748|||| | |||
|- | |||
| HL019||4||59623024|||| | |||
|- | |||
| HL024||1||64242556|||| | |||
|- | |||
| HL025||1||36424692|||| | |||
|- | |||
| HL027||8||47824792|||| | |||
|- | |||
| HL028||6||37242492|||| | |||
|- | |||
| HL029||1||33484628|||| | |||
|- | |||
| HL030||1||58820868|||| | |||
|- | |||
| AL006||5||57942248|||| | |||
|- | |||
|} | |||
=iPS and Cancer= | =iPS and Cancer= |
Latest revision as of 19:24, 8 January 2010
PGP[edit]
- If we only use data from October or newer, we have the following data sets:
- HL013
- HL024
- HL025
- HL029
- HL019
- HL014
- HL028
- HL015
- HL027
- HL030
- AL006
- Need to find the mapping rate for each one; can guess its usefulness in the data set this way.
- Should we incorporate older reads?
- Map one lane from each flowcell to get a general idea of mapping rate.
- Fill in the below table:
Flowcell | Lane | Number of Reads | Mapped Reads | Mapped Downsampled Reads |
HL013 | 1 | 59491092 | ||
HL014 | 6 | 47862784 | ||
HL015 | 1 | 53717748 | ||
HL019 | 4 | 59623024 | ||
HL024 | 1 | 64242556 | ||
HL025 | 1 | 36424692 | ||
HL027 | 8 | 47824792 | ||
HL028 | 6 | 37242492 | ||
HL029 | 1 | 33484628 | ||
HL030 | 1 | 58820868 | ||
AL006 | 5 | 57942248 |
iPS and Cancer[edit]
- Waiting to hear back from Science
- First advisor didn't really seem to read paper
- If no response, try with Nature
- Rewriting as Letter to Nature
- Guidelines: LINK
- ~200 word introductory paragraph, ~1500 word text, ~300 word methods summary, ~1000 word methods, and supplementary info
- Mostly done with rewrite; need to go over text of paper and edit the additions made