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pauline-ng
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SIFT4G_Create_Genomic_DB
Create genomic databases with SIFT predictions. Input is an organism's genomic DNA (.fa) file and the gene annotation file (.gtf). Output will be a database that can be used with SIFT4G_Annotator.jar to annotate VCF files.
GNU General Public License v3.0
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some error
#49
BaHole
closed
2 years ago
1
SIFT
#48
BaHole
closed
3 years ago
1
no data
#47
BaHole
closed
3 years ago
5
problem for constructing the database of test data
#46
yinhongwei4079
closed
3 years ago
7
Problem creating genomic database for new organism_1
#45
AlisaGU
closed
2 years ago
5
No SIFT_score shows in chr*.gz file
#44
wangnan9394
closed
3 years ago
4
how to evaluate the siftddatabase?
#43
yywyaoyaowu
closed
3 years ago
3
annotate file error, no output
#42
zhansia
closed
2 years ago
1
config file checking
#41
zhansia
closed
3 years ago
1
Cannot create own database
#40
zhansia
closed
2 years ago
3
No output after building database
#39
zhansia
closed
3 years ago
3
I found “SIFT_SCORE=NA”, "SIFT_MEDIAN=NA", "NUM_SEQS=NA", "SIFT_PREDICTION=NA" in my output
#38
wangnan9394
closed
3 years ago
2
Error when run the SIFT Algorithm
#37
zhansia
closed
3 years ago
2
Error when building the sample database
#36
zhansia
closed
3 years ago
2
protein_DB file
#35
zhansia
closed
3 years ago
1
Error in running process
#34
zhansia
closed
3 years ago
9
Running error
#33
zhansia
closed
3 years ago
2
Error in Annotate VCF files with the SIFT Database
#32
sunshichao0916
closed
3 years ago
20
file not existed
#31
zhansia
closed
3 years ago
3
Process stop while creating the database
#30
ruru-adra
closed
3 years ago
5
Error when construct test database (homo sapiens)
#29
ruru-adra
closed
3 years ago
7
Error while creating database
#28
ruru-adra
closed
3 years ago
6
Is the database well constructed? Got
#27
yywyaoyaowu
closed
3 years ago
24
error when construct database, and sift4g
#26
yywyaoyaowu
closed
3 years ago
13
I find a methods for speed the analysis in sift4g to build a new database
#25
chaimol
closed
2 years ago
1
Error in built my own database
#24
sunshichao0916
closed
3 years ago
21
build a database ,but the SIFT numeric scores in columns 10-12 too many rows say "NA".
#23
chaimol
closed
3 years ago
0
How synonymous variants are predicted to be deleterious
#22
Kalpi-ds
closed
4 years ago
1
synonymous variants predicted deleterious by SIFT
#21
pauline-ng
closed
4 years ago
0
python scripts are in python2, giving users problems
#20
pauline-ng
closed
3 years ago
1
What next after seeing X characters in my all_prot.fasta
#19
eyeamnice
closed
4 years ago
5
Error to build my own database
#18
liuqianhn
closed
4 years ago
22
Run each chromosome/contig independently
#17
jarobin
closed
4 years ago
1
Building database error with test data
#16
sandyplus
closed
4 years ago
5
make-single-records error
#15
sloux
closed
4 years ago
9
How to create a database locally?
#14
ggoodstudydaydayup
closed
4 years ago
16
Could I create database without download?
#13
ggoodstudydaydayup
closed
4 years ago
0
can't locate common-utils.pl in @INC
#12
sloux
closed
4 years ago
5
Use of uninitialized value within @adj_ends in subtraction (-) at make-single-records-BIOPERL.pl line 198, <IN_TX> line 792
#11
Arynio
closed
4 years ago
4
Issues in creating a database for a new organism
#10
linf545
closed
5 years ago
12
regex_error when created database
#9
daxian248
closed
5 years ago
3
Use of uninitialized value in concatenation (.) or string at make-single-records-BIOPERL.pl line 301
#8
pauline-ng
closed
5 years ago
14
Issues creating database for new genome version
#7
durwa004
closed
5 years ago
8
Problem creating genomic database for new organism
#6
aamirwkhan06
closed
4 years ago
6
Bio::DB::IndexedBase::_strip_crnl redefined
#5
conniecl
closed
4 years ago
6
requirements gtf files
#4
fraca
closed
6 years ago
2
GFF file format
#3
pauline-ng
closed
7 years ago
0
Stuck on "processing database" - database not created
#2
pauline-ng
closed
7 years ago
13
Avoiding to rezip chr-src/ in final steps
#1
EvelyneC
closed
7 years ago
1
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