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FelixKrueger
/
SNPsplit
Allele-specific alignment sorting
http://felixkrueger.github.io/SNPsplit/
GNU General Public License v3.0
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C>T SNPs preventing the assignment
#33
GuidoBarzaghi
closed
4 years ago
3
Output genome files contain UA flags
#32
GuidoBarzaghi
closed
4 years ago
2
Question about analysis pipeline when using SNPsplit
#31
AIBio
closed
4 years ago
8
Support for soft-clipping seems to be working now
#30
FelixKrueger
closed
4 years ago
0
Stats in YAML format to enable integration into MultiQC
#29
FelixKrueger
closed
4 years ago
2
Supporting soft-clipping
#28
Shians
closed
4 years ago
5
Consider adding single-end/paired-end auto-detection
#27
FelixKrueger
closed
5 years ago
0
set "--dual_hybrid" did not mask reference
#26
skytguuu
closed
5 years ago
12
How to use a self prepared VCF ?
#25
hmyh1202
closed
5 years ago
7
High level of unassigned reads
#24
cap76
closed
5 years ago
3
question regarding the HiC module
#23
vivekbhr
closed
5 years ago
3
Phased human genomes
#22
LRizzardi1
closed
4 years ago
4
make use of $genome_build to allow for different genomes like 'GRCh38'
#21
steffenheyne
closed
6 years ago
2
updates for conda
#20
vivekbhr
closed
6 years ago
5
BWA is not supported [as BWA does not allow Ns in the index]
#19
RoseString
closed
6 years ago
5
MD:A tag
#18
caleblareau
closed
6 years ago
7
Keeping reads at CG SNPs using Bismark
#17
jrmerritt6
closed
6 years ago
2
a naive question
#16
hmyh1202
closed
7 years ago
1
Please return an error when runnning out of memory
#15
patrickvdb
closed
7 years ago
7
printing genome1 and genome2 strain name while sorting
#14
vivekbhr
closed
7 years ago
2
option to specify output directory
#13
vivekbhr
closed
7 years ago
18
All reads are unassignable
#12
RoseString
closed
7 years ago
4
Why are there so many reads not containing one of the expected bases at known SNP positions ?
#11
lss1227
closed
7 years ago
7
Tidy up and MD-ify docs
#10
FelixKrueger
closed
6 years ago
2
Add --high_confidence option for dual hybrid genomes
#9
FelixKrueger
closed
7 years ago
2
Relax genome preparation filtering criteria
#8
FelixKrueger
closed
7 years ago
1
Fix typo in command line option
#7
PeteHaitch
closed
7 years ago
1
Question about homozygous SNP ?
#6
hxlei
closed
7 years ago
4
The awk script makes me confused
#5
lyhonk
closed
8 years ago
1
Add check for incompatible genomes (e.g. UCSC Golden Path)
#4
FelixKrueger
closed
8 years ago
0
modified help page and samtools_path usage
#3
khillion
closed
8 years ago
0
Change the BAM file sort command for Samtools v1.3+
#2
FelixKrueger
closed
8 years ago
1
Writing sorting report for single-end files to file
#1
FelixKrueger
closed
8 years ago
1
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