Originally posted by zhengz
View Post
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
-
-
Originally posted by aligenie View PostSo when I try these commands, I get ERROR: Default MID sets gsMIDs and flMIDs do not exist in configuration file. What is odd is that they do. I don't even want to use the MIDConfig.Parse file which is why I use the -mcf command so I think it is very odd. Should I put my barcode.txt file in the config folder?
Put your barcodes as supposed into a file, and then, in your case use e.g.
sfffile -s barcode -o myNewSFF -mcf /path/to/barcodefile *.sff
cheers,
Sven
Comment
-
Originally posted by sklages View PostWith -s you tell sfffile to split default barcodes from default barcode file.
Put your barcodes as supposed into a file, and then, in your case use e.g.
sfffile -s barcode -o myNewSFF -mcf /path/to/barcodefile *.sff
cheers,
Sven
Comment
-
Hi ali,
I guess the sfffile looks for the barcode set which you define in your barcode file and the name you specify in the command line after -s. If no match, it continues to look for gsMID and rlMID. Maybe you can remove the lines after gsMID or rlMID (yes, save a copy first), and see what the error message suggests you. Hope it works out for you eventually.
A side note: I think it is better to avoid using "*.sff", which will combine the samples having the same barcode but from different physically separated Regions (Lanes) in one sff file. Better to spell out the sff file name, instead of using wildcard. But if you have no sent the results to others, no worries, you will notice the problem, and it is quick to run the sfffile command again. It finishes in a minute.Last edited by zhengz; 04-22-2011, 11:59 PM.
Comment
Latest Articles
Collapse
-
by seqadmin
The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...-
Channel: Articles
04-22-2024, 07:01 AM -
-
by seqadmin
Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...-
Channel: Articles
04-04-2024, 04:25 PM -
ad_right_rmr
Collapse
News
Collapse
Topics | Statistics | Last Post | ||
---|---|---|---|---|
Started by seqadmin, Today, 08:47 AM
|
0 responses
12 views
0 likes
|
Last Post
by seqadmin
Today, 08:47 AM
|
||
Started by seqadmin, 04-11-2024, 12:08 PM
|
0 responses
60 views
0 likes
|
Last Post
by seqadmin
04-11-2024, 12:08 PM
|
||
Started by seqadmin, 04-10-2024, 10:19 PM
|
0 responses
59 views
0 likes
|
Last Post
by seqadmin
04-10-2024, 10:19 PM
|
||
Started by seqadmin, 04-10-2024, 09:21 AM
|
0 responses
54 views
0 likes
|
Last Post
by seqadmin
04-10-2024, 09:21 AM
|
Comment