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StevenWingett
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FastQ-Screen
Detecting contamination in NGS data and multi-species analysis
https://stevenwingett.github.io/FastQ-Screen/
GNU General Public License v3.0
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FastQ-Screen does not recognize BWA index file with ".64" extension
#75
LauraEgolf
opened
3 weeks ago
1
Minimap2 aligner, only support for fa.gz/.fa files instead of mmi index files
#74
SergeWielhouwer
closed
1 month ago
1
fastq screen is not screening against the added genome
#73
Ayush09-cmd
opened
1 month ago
1
Aligner warning: Killed Aligner warning: (ERR): bowtie2-align exited with value 137
#72
Ayush09-cmd
closed
1 month ago
3
Question on reads mapping to multiple genomes
#71
HenriettaHolze
closed
3 months ago
1
No reference genomes were configured, please adjust configuration
#70
Linnaeus001
closed
5 months ago
4
Reference genomes on Babraham Bioinformatics website are no longer available for download
#69
kuanyili
closed
6 months ago
3
Doesn't match if U nucleotide used in sequence
#68
keenhl
opened
8 months ago
3
Minimap2 aligner support
#67
mp15
closed
1 month ago
2
Minimap2 aligner support
#66
mp15
closed
1 year ago
2
Filtering was killed
#65
Eduardo-Auer
closed
1 year ago
1
Unable to download v0.15.3 FastQ-Screen or --get_genomes
#64
Weng-yann
closed
1 year ago
1
Filtering bisulfite fastq files
#63
amsparks
opened
1 year ago
3
issue installing..
#62
chorong5155
closed
1 year ago
1
Skipping DATABASE
#61
airbender97
closed
1 year ago
1
FastQC on output
#60
christiane-morecock
closed
1 year ago
5
Update version number 0.15.1 to 0.15.2
#59
molecules
closed
1 year ago
1
Using pigz for parallel gzip operations
#58
JoshLoecker
opened
2 years ago
2
Question- how to include no hit reads into final fastq data while screening?
#57
anilchauhanhp9
closed
2 years ago
1
Only "no hits" in the output!!
#56
Hela06
closed
2 years ago
3
can we download a subset of index database?
#55
M-gowda
closed
2 years ago
1
URL of bbtools repair, linked in documentation, has changed
#54
ascottsimons
closed
2 years ago
1
Fail to install GD module
#53
ericjuo
closed
2 years ago
1
Support for STAR
#52
perinom
closed
2 years ago
2
Pre release
#51
StevenWingett
closed
2 years ago
0
Development
#50
StevenWingett
closed
2 years ago
0
Documentation
#49
StevenWingett
closed
2 years ago
0
Development
#48
StevenWingett
closed
2 years ago
0
--get_genomes download failed
#47
trfeuerborn
closed
2 years ago
8
Error while performing --bisulfite read mapping
#46
rbpisupati
closed
2 years ago
4
Devel
#45
StevenWingett
closed
3 years ago
0
Pre release
#44
StevenWingett
closed
3 years ago
0
Devel
#43
StevenWingett
closed
3 years ago
0
Devel
#42
StevenWingett
closed
3 years ago
0
Devel
#41
StevenWingett
closed
3 years ago
0
Documentation
#40
StevenWingett
closed
3 years ago
0
Error with certificate for --get-genome
#39
SebastienNin
closed
3 years ago
7
R1 and R2 generate map differently to the human genome
#38
ghost
closed
3 years ago
4
Changeable Bowtie2 options (--very-fast)
#37
LucasFVoges
closed
2 years ago
3
With BWA, R1 & R2 files can have very different mapping signatures
#36
cbird808
closed
2 years ago
7
How many nucleotides (bp) need to be matched between one read of our genome and reference genome?
#35
lida-R
closed
2 years ago
2
Processing very long reads
#34
StevenWingett
opened
3 years ago
2
Message when passed non-valid path to bowtie2
#33
StevenWingett
opened
4 years ago
0
How to run Fastq-screen on paired end RNA-Seq data?
#32
lida-R
closed
4 years ago
5
Pairing filtered FASTQ files
#31
StevenWingett
closed
3 years ago
10
rRNA genome
#30
StevenWingett
opened
4 years ago
6
v0.10.0 much slower when using higher number of threads
#29
sentausa
closed
2 years ago
2
fastq_screen does not yield non-zero exit code when aligner returns non-zero exit code
#28
k1sauce
opened
4 years ago
1
SAM or BAM files extraction after alignment
#27
ghost
closed
4 years ago
1
pair-end screen
#26
jeongmeani
closed
4 years ago
1
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