Difference between revisions of "CH391L/UTpond"

From Marcotte Lab
Jump to: navigation, search
(Databases)
 
Line 13: Line 13:
 
* Eukaryotes (Organelle): http://www.marcottelab.org/users/CH391L/UTpond/ENA.organelle/ENA_organelle.fna.gz (2,982 genomes)
 
* Eukaryotes (Organelle): http://www.marcottelab.org/users/CH391L/UTpond/ENA.organelle/ENA_organelle.fna.gz (2,982 genomes)
 
** Source: http://www.ebi.ac.uk/genomes/organelle.html
 
** Source: http://www.ebi.ac.uk/genomes/organelle.html
 +
 +
== Mapping results (SAM file + read_freq) ==
 +
* Prokaryotes: http://www.marcottelab.org/users/CH391L/UTpond/NCBI.bacteria/
 +
* Eukaryotes: http://www.marcottelab.org/users/CH391L/UTpond/ENA.organelle/
  
 
== Analysis tool ==
 
== Analysis tool ==

Latest revision as of 16:43, 28 March 2011

Contents

Number of reads

  • V3BC21: 213,419 (F3), 199,158 (F5), 223,100 (raw)
  • V3BC22: 634,431 (F3), 595,251 (F5), 661,120 (raw)
  • V3BC23: 1,015,471 (F3), 951,357 (F5), 1,060,308 (raw)
  • V3BC24: 562,803 (F3), 525,892 (F5), 588,304 (raw)
  • V3BC25: 569,125 (F3), 531,015 (F5), 595,064 (raw)

You can download CSFASTA files from here.

Databases

Mapping results (SAM file + read_freq)

Analysis tool

$ gsmapper-cs foobar.csfasta db.fasta -E -N 4 -o 1000 -h 80% >foobar.gsmapper_sam 2>foobar.gsmapper_log