Difference between revisions of "Francisella tularensis"

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OSU18 : BCM complete
 
OSU18 : BCM complete
 +
 +
Assembly steps:
 +
  1. Reads were downloaded from TA and formatted using tarchive2ca
 +
  2. There are 2 Sanger libraries for this project
 +
      BFTBP:58051 reads
 +
      BFTDP:10409 reads
 +
  3. The reads have been retrimmed using veraTrim (-T 10 -M 100 -E 500)
 +
  4. runCA-OBT.pl has been used to assemble all the reads
 +
  5. The library sizes were updates using the WGA estimates
 +
  6. The WGA was aligned to the reference using nucmer; one rearrangement, one deletion and several SNP's were noticed
  
 
Assemblies location:  
 
Assemblies location:  
 
   /fs/szasmg/Bacteria/F_tularensis_holarctica_OSU18/
 
   /fs/szasmg/Bacteria/F_tularensis_holarctica_OSU18/
  
Final assembly:       
+
Final assembly location:       
 
   /fs/szasmg/Bacteria/F_tularensis_holarctica_OSU18/best
 
   /fs/szasmg/Bacteria/F_tularensis_holarctica_OSU18/best
  

Revision as of 19:28, 8 August 2007

Data sources:

NCBI:

Broad:

Baylor:

Type A:

FSC033 : Broad assembly (15 contigs)

Assemblies location:

 /fs/szasmg/Bacteria/F_tularensis_tularensis_FSC033/

Type B:

OSU18 : BCM complete

Assembly steps:

 1. Reads were downloaded from TA and formatted using tarchive2ca 
 2. There are 2 Sanger libraries for this project 
      BFTBP:58051 reads
      BFTDP:10409 reads
 3. The reads have been retrimmed using veraTrim (-T 10 -M 100 -E 500)
 4. runCA-OBT.pl has been used to assemble all the reads
 5. The library sizes were updates using the WGA estimates
 6. The WGA was aligned to the reference using nucmer; one rearrangement, one deletion and several SNP's were noticed

Assemblies location:

 /fs/szasmg/Bacteria/F_tularensis_holarctica_OSU18/

Final assembly location:

 /fs/szasmg/Bacteria/F_tularensis_holarctica_OSU18/best

Novicida

Mediasiatica