LoFreq Discussion

Fast and sensitive variant-calling from sequencing data

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General Discussion

Forum about anything you want to talk about.

Topic	Posts	Views	Last Post
Strand Bias By jessica preston on Thu Nov 20, 2014 08:30 PM	8	2714	By Luca Mologni on Thu Mar 03, 2022 11:07 PM
QUAL output column By Catherine Arnold on Fri Jan 08, 2021 07:01 PM	2	234	By Andreas Wilm on Sat Jan 09, 2021 04:47 AM
Source quality meaning By Eugenia Zarza on Tue Aug 14, 2018 06:18 PM	2	424	By Andreas Wilm on Tue Aug 21, 2018 04:15 AM
Source quality and ignore VCF in single tumor sample. By Camilo on Fri May 18, 2018 03:13 PM	7	503	By Camilo on Sat May 26, 2018 04:08 PM
Alternatives to GATK for upstream processing? By Steve on Wed May 16, 2018 02:04 PM	2	460	By Andreas Wilm on Thu May 17, 2018 02:07 PM
Default filtering criteria By Steve on Thu May 03, 2018 11:12 PM	4	1378	By Andreas Wilm on Sun May 06, 2018 01:35 AM
SNV QUAL calculation By jessica preston on Thu Apr 17, 2014 08:33 PM	5	2484	By Andreas Wilm on Fri May 04, 2018 01:57 AM
Minimum AF for passing a somatic variant call By Francisco De La Vega on Sat Mar 24, 2018 05:45 AM	2	342	By Andreas Wilm on Sat Mar 24, 2018 12:44 PM
hg19 or GRCh38 fasta files are not working By Nils Engel on Sun Nov 12, 2017 10:05 PM	2	613	By Andreas Wilm on Mon Nov 13, 2017 01:46 AM
Conflicting AF estimates By siva on Wed Oct 25, 2017 08:58 PM	2	279	By Andreas Wilm on Thu Oct 26, 2017 02:37 AM
Why was this call filtered out? By Erik Reckase on Mon Mar 28, 2016 05:13 PM	2	395	By Andreas Wilm on Tue Mar 29, 2016 01:15 AM
sb_holmbonf flag? By jessica preston on Wed Sep 16, 2015 06:37 PM	1	388	By Andreas Wilm on Thu Sep 17, 2015 01:31 AM
Specifying a targeted set of mutations with --bed By Erik Reckase on Wed May 06, 2015 07:16 PM	1	398	By Andreas Wilm on Thu May 07, 2015 08:30 AM
Base quality filter seems does not work By gmy on Wed Apr 08, 2015 11:46 AM	4	600	By Andreas Wilm on Thu Apr 16, 2015 05:59 AM
Indels filtering for Lofreq By chris.cornor on Tue Mar 03, 2015 11:21 AM	3	606	By chris.cornor on Tue Mar 03, 2015 02:16 PM
Error running lofreq somatic and indel calling handler on normal tumo... By chris.cornor on Wed Jan 14, 2015 05:45 PM	13	2194	By Andreas Wilm on Mon Jan 19, 2015 01:37 PM
python error By Joon on Sun Aug 24, 2014 01:59 AM	3	600	By Joon on Sun Aug 24, 2014 11:44 PM
Differing results with BED regions By Brian Ondov on Thu Jul 24, 2014 02:06 PM	7	584	By Andreas Wilm on Tue Jul 29, 2014 04:16 AM
Quality Filtering By jessica preston on Thu Jun 12, 2014 10:54 PM	2	448	By Andreas Wilm on Tue Jun 17, 2014 08:42 PM
LoFreq2: Indels and filtering By Robert Eveleigh on Fri Jun 06, 2014 07:06 PM	2	1560	By Andreas Wilm on Mon Jun 09, 2014 07:13 AM
Filter by AF value By Elena on Thu May 22, 2014 06:16 AM	3	983	By Andreas Wilm on Fri May 23, 2014 01:29 AM
Symbol R in .csv output By jessica preston on Wed Apr 02, 2014 09:24 PM	5	504	By jessica preston on Thu Apr 03, 2014 03:12 PM
Quality filtering By jessica preston on Mon Mar 31, 2014 11:50 PM	6	1299	By Andreas Wilm on Wed Apr 02, 2014 10:59 AM
Problems with lofreq_filter.py By jessica preston on Tue Mar 18, 2014 04:44 AM	2	265	By Andreas Wilm on Tue Mar 18, 2014 04:50 AM
Problems with installation By Elena on Sat Feb 15, 2014 11:47 PM	3	619	By Andreas Wilm on Mon Feb 17, 2014 07:53 AM

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