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wyang17
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SQuIRE
Software for Quantifying Interspersed Repeat Expression
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Non-model species
#53
RRebo
opened
3 years ago
7
An error of running squire
#52
netwchao
closed
3 years ago
0
Question about milliDiv
#51
acontrerasg
opened
3 years ago
1
squrie fetch takes too long
#50
weidagong
opened
3 years ago
0
Run this tool in a custom genome?
#49
acontrerasg
closed
3 years ago
2
Help on strand L1 expression
#48
GuillermoPeris
opened
3 years ago
2
RNA seq data simulation
#47
whiteorchid
opened
3 years ago
0
Discordant number of TE copies across samples
#46
juheon
opened
3 years ago
4
Errors in mapping and calling
#45
uedaMT
opened
4 years ago
3
STAR index build fails right away
#44
emattei
opened
4 years ago
2
IndexError: list index out of range in call step
#43
whiteorchid
opened
4 years ago
0
'GENCODE comprehensive' gene annotation
#42
emattei
opened
4 years ago
0
Different workflow for the analysis of nuclear RNA-seq data sets?
#41
MaxwellShih
opened
4 years ago
0
squire Count ZeroDivisionError: float division by zero
#40
hyungjoo-lee
opened
4 years ago
3
New release
#39
hmontenegro
opened
4 years ago
1
duplications of gene_id in the gtf file inside the squire_fetch directory
#38
MaxwellShih
opened
4 years ago
0
Does the read length (-r xxx) in the squire Map and Count matter?
#37
MaxwellShih
opened
4 years ago
11
Reason for concatenating fastq paths in squire map SGE cluster script "loop_map.sh"?
#36
bvaldebenitom
opened
4 years ago
1
TE reads originating from pre-mRNAs or retained introns
#35
vasilislenis
opened
4 years ago
0
a docker container for SQuIRE ?
#34
tanasa
opened
4 years ago
2
squire count issue
#33
SalimMegat
closed
5 years ago
1
error running count
#32
sciai-ai
closed
3 years ago
7
UnboundLocalError: local variable 'paired' referenced before assignment
#31
alerubio
opened
5 years ago
2
[squire Map] aborted mapping step
#30
Eugloh
opened
5 years ago
1
mapping step error
#29
mb3188
opened
5 years ago
3
Explanation of SQuIRE Count output file format
#28
Winbuntu
opened
5 years ago
7
Problem with the output graphs
#27
vasilislenis
opened
5 years ago
5
Pipeline for DE retrotransposon analysis
#26
egoecho
opened
5 years ago
3
Network is unreachable
#25
vasilislenis
opened
5 years ago
4
Can it run on a Slurm?
#24
vasilislenis
opened
5 years ago
2
Fix TE names in subfamily count table
#23
wwliao
closed
5 years ago
1
does the gene ID collision in GTF affect the stranded libraries?
#22
zhjilin
opened
5 years ago
2
argument error
#21
SalimMegat
closed
5 years ago
10
create_subfamily_dict count assignment
#20
yavorska
opened
5 years ago
0
Count process never ends
#19
ferrasa
opened
6 years ago
20
Error in Count - prev_TE_ID not defined
#18
cpacyna
closed
5 years ago
4
Debugged Count error
#17
wyang17
closed
6 years ago
0
Debugged Count
#16
wyang17
closed
6 years ago
0
Error in Count - filter_abund()
#15
cpacyna
closed
6 years ago
1
Newflag
#14
wyang17
closed
6 years ago
0
Error in Count.py
#13
ferrasa
closed
6 years ago
3
2018_07_11 Update Count libsize output
#12
wyang17
closed
6 years ago
0
Debugged error in downloading melanogaster genome
#11
wyang17
closed
6 years ago
0
Update conda install to include gtftogenepred
#10
wyang17
closed
6 years ago
0
Revert "Newflag"
#9
wyang17
closed
6 years ago
0
Newflag
#8
wyang17
closed
6 years ago
0
Error in writing count outputs
#7
cpacyna
closed
6 years ago
0
Fix find_file _gtf.txt bug
#6
cpacyna
closed
6 years ago
0
Non ref
#5
wyang17
closed
6 years ago
0
Update Sample Scripts through Map
#4
cpacyna
closed
6 years ago
0
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