Hi All,
I'm trying to make a blast database, but I'm not sure what type of file I have. What I'm trying to do is take the R1 and R2 files from RNA-seq and create a database. When I make my database can these two files be put together into one database or will I have to make a separate database for each file? Right now I'm just doing one file at a time.
Here is an example of the command I'm using:
makeblastdb -in SM1_no_dups_R1.q -dbtype 'nucl' -out SM1R1db
The error:
BLAST options error: SM1_no_dups_R1.q does not match input format type, default input type is FASTA
Here's part of my file:
@D3NH4HQ1:107:C0LN7ACXX:1:1101:1423:2144 1:N:0:ATCACG
CGGCTTCAGACATTTTGGGTCTTCCTTACTAGCAACACATTTTTGTGCAAGGTCTGTGACATCTTTTACCATTTTAGCTGCTTCTTCATAAGTGCTTT
+
CCFFFFFHHGHHJJJJHIJHHHIIJJJIJJJJJJJJJJDIJJJJJHIIJJJJGHIJJJIJIJJJJJJHHHHHHF@DFFFEEEEEEEDDEECCFDDEDD
@D3NH4HQ1:107:C0LN7ACXX:1:1101:1418:2180 1:N:0:ATCACG
CTGGTTGCAAATAGACTGGTTCTTATGGGCAAGAACAAAAAGAGTGTGATATGGTCCAACTGAGCCATACAGTATTTCCAGACTTCAACAGGTCAATC
+
@@DDDDDAFHFH@<?EEFG@9?FEEHHIGFBEBEDFHFGBB@7?9BGFEHGII@BB)=CG@GGGADEAGHHFC??7>C?BDDECCCCCCCAAACCCDC
@D3NH4HQ1:107:C0LN7ACXX:1:1101:1835:2135 1:N:0:ATCACG
GCATGTCTGATGAAGTGGGTCTTCACCCACCAAAGGTTATGCTCCAATATATCTGCTAGTCTATAAGGTGCCACAAGATTCTTTGCTGCTCTTGCAGA
+
Thank you!
I'm trying to make a blast database, but I'm not sure what type of file I have. What I'm trying to do is take the R1 and R2 files from RNA-seq and create a database. When I make my database can these two files be put together into one database or will I have to make a separate database for each file? Right now I'm just doing one file at a time.
Here is an example of the command I'm using:
makeblastdb -in SM1_no_dups_R1.q -dbtype 'nucl' -out SM1R1db
The error:
BLAST options error: SM1_no_dups_R1.q does not match input format type, default input type is FASTA
Here's part of my file:
@D3NH4HQ1:107:C0LN7ACXX:1:1101:1423:2144 1:N:0:ATCACG
CGGCTTCAGACATTTTGGGTCTTCCTTACTAGCAACACATTTTTGTGCAAGGTCTGTGACATCTTTTACCATTTTAGCTGCTTCTTCATAAGTGCTTT
+
CCFFFFFHHGHHJJJJHIJHHHIIJJJIJJJJJJJJJJDIJJJJJHIIJJJJGHIJJJIJIJJJJJJHHHHHHF@DFFFEEEEEEEDDEECCFDDEDD
@D3NH4HQ1:107:C0LN7ACXX:1:1101:1418:2180 1:N:0:ATCACG
CTGGTTGCAAATAGACTGGTTCTTATGGGCAAGAACAAAAAGAGTGTGATATGGTCCAACTGAGCCATACAGTATTTCCAGACTTCAACAGGTCAATC
+
@@DDDDDAFHFH@<?EEFG@9?FEEHHIGFBEBEDFHFGBB@7?9BGFEHGII@BB)=CG@GGGADEAGHHFC??7>C?BDDECCCCCCCAAACCCDC
@D3NH4HQ1:107:C0LN7ACXX:1:1101:1835:2135 1:N:0:ATCACG
GCATGTCTGATGAAGTGGGTCTTCACCCACCAAAGGTTATGCTCCAATATATCTGCTAGTCTATAAGGTGCCACAAGATTCTTTGCTGCTCTTGCAGA
+
Thank you!
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