tools to open GFF3 or GVF files# Biology - 生物学
r*u
1 楼
有没有 TSC Receiving Date 2/6/2012 以后
收到 FP notice 的
收到 FP notice 的
b*g
2 楼
请教大家用什么软件可以打开GFF3和GVF files？
谢谢！
谢谢！
t*l
3 楼
my RD 2/6/12
No FN
No FN
s*y
4 楼
Try Integrative Genomics Viewer,
never used gvf before though
never used gvf before though
t*u
5 楼
my RD 2/6/2012
No FP too.
Also still can't check status on online.
No FP too.
Also still can't check status on online.
b*g
6 楼
Thanks! 我试下
u*n
7 楼
Mine is RD 2/7/12. No FP so far.
【在 r**********u 的大作中提到】
: 有没有 TSC Receiving Date 2/6/2012 以后
: 收到 FP notice 的
【在 r**********u 的大作中提到】
: 有没有 TSC Receiving Date 2/6/2012 以后
: 收到 FP notice 的
b*g
8 楼
不行啊，打不开GVF ：（
z*r
9 楼
RD 2/6/2012
No FP notice, can't check status online.
【在 r**********u 的大作中提到】
: 有没有 TSC Receiving Date 2/6/2012 以后
: 收到 FP notice 的
No FP notice, can't check status online.
【在 r**********u 的大作中提到】
: 有没有 TSC Receiving Date 2/6/2012 以后
: 收到 FP notice 的
l*1
10 楼
GVF2VCF
GVF to VCF file converter (currently beta)
The Genome Variation Format (GVF) is a file format for describing sequence
variants at nucleotide resolution relative to a reference genome. GVF dumps
are available from the Ensembl FTP site. However, many tools prefer to use
the 1000 Genomes VCF format (e.g. Genome Analysis Toolkit), so a converter
is often needed. This converter currently only supports output in VCF v4.0.
Large, inexact structural variants will therefore be skipped (v4.1 of VCF
now has support for these larger structural variants)
NOTE only tested with Ensembl COSMIC GVF human genome annotation. No
guarantees with other GVF files. Please let me know when you have problems
with other GVFs. Contributions and updates are welcome as well as shared
authorship.
//www.1000genomes.org/wiki/Analysis/Variant%20Call%20Format/vcf-variant-call
-format-version-40
//code.google.com/p/gvf2vcf/
//www.yandell-lab.org/software/VAAST_Quick-Start-Guide.pdf
//www.broadinstitute.org/igv/VCF
//www.broadinstitute.org/igv/viewing_vcf_files
【在 b***g 的大作中提到】
: 不行啊，打不开GVF ：（
GVF to VCF file converter (currently beta)
The Genome Variation Format (GVF) is a file format for describing sequence
variants at nucleotide resolution relative to a reference genome. GVF dumps
are available from the Ensembl FTP site. However, many tools prefer to use
the 1000 Genomes VCF format (e.g. Genome Analysis Toolkit), so a converter
is often needed. This converter currently only supports output in VCF v4.0.
Large, inexact structural variants will therefore be skipped (v4.1 of VCF
now has support for these larger structural variants)
NOTE only tested with Ensembl COSMIC GVF human genome annotation. No
guarantees with other GVF files. Please let me know when you have problems
with other GVFs. Contributions and updates are welcome as well as shared
authorship.
//www.1000genomes.org/wiki/Analysis/Variant%20Call%20Format/vcf-variant-call
-format-version-40
//code.google.com/p/gvf2vcf/
//www.yandell-lab.org/software/VAAST_Quick-Start-Guide.pdf
//www.broadinstitute.org/igv/VCF
//www.broadinstitute.org/igv/viewing_vcf_files
【在 b***g 的大作中提到】
: 不行啊，打不开GVF ：（
t*g
11 楼
rd 2/6
notice date 2/16
no ft yet
notice date 2/16
no ft yet
b*g
12 楼
多谢楼上的！ 是老鼠的GVF，anyway我试下先！
l*1
13 楼
De rien
【在 b***g 的大作中提到】
: 多谢楼上的！ 是老鼠的GVF，anyway我试下先！
【在 b***g 的大作中提到】
: 多谢楼上的！ 是老鼠的GVF，anyway我试下先！
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