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0
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0
replies
4.2k
views
Comment:
C: Calculating Tajima's D from SNP frequency data
3.9 years ago by
Jautis
▴ 580
0
votes
0
replies
4.0k
views
Comment:
C: A strange R limma voom function mean-variance trend
3.9 years ago by
Jautis
▴ 580
0
votes
0
replies
8.5k
views
Answer:
A: 012 genotype matrix using vcf tools
4.0 years ago by
Jautis
▴ 580
7
votes
15
replies
7.5k
views
6 follow
Modifying fasta file based on vcf information
reference-genome
vcf
fasta
updated 23 months ago by
Ram
44k • written 9.5 years ago by
Jautis
▴ 580
0
votes
0
replies
671
views
GO based on NCBI annotation
genome
enrichment
GSEA
GO
4.3 years ago by
Jautis
▴ 580
0
votes
0
replies
1.3k
views
Comment:
C: Phasing non-human genomes with Beagle - do I need to divide subjects by populati
4.4 years ago by
Jautis
▴ 580
0
votes
1
reply
14k
views
Comment:
C: How to remove a list of reads from fastq file?
4.5 years ago by
Jautis
▴ 580
0
votes
0
replies
1.2k
views
Convert VCF + LDhelmet Recombination Rates to EIGENSTRAT format
vcf
linkage
SNP
genome
4.7 years ago by
Jautis
▴ 580
0
votes
0
replies
1.1k
views
find position of snps in cM, given recombination map from ldhelmet
recombination
genome
physical position
4.7 years ago by
Jautis
▴ 580
0
votes
0
replies
2.9k
views
Comment:
C: sed (or similar) command to remove part of the FORMAT from a vcf file?
4.8 years ago by
Jautis
▴ 580
2
votes
2
replies
2.9k
views
sed (or similar) command to remove part of the FORMAT from a vcf file?
vcf
sed
processing
updated 4.8 years ago by
finswimmer
16k • written 4.8 years ago by
Jautis
▴ 580
0
votes
1
reply
15k
views
Comment:
C: How to combine chromosome vcf files
4.8 years ago by
Jautis
▴ 580
0
votes
0
replies
2.7k
views
Comment:
C: Phylogenetic distance betwee species
updated 5.0 years ago by
Ram
44k • written 9.0 years ago by
Jautis
▴ 580
2
votes
0
replies
4.7k
views
Comment:
C: Good Bioinformatics research papers
updated 5.0 years ago by
Ram
44k • written 9.1 years ago by
Jautis
▴ 580
0
votes
1
reply
3.8k
views
Comment:
C: Taking genotypes out of a vcf file
updated 5.1 years ago by
Ram
44k • written 9.4 years ago by
Jautis
▴ 580
0
votes
0
replies
13k
views
Comment:
C: Calculating the bisulfite conversion rate
updated 5.1 years ago by
Ram
44k • written 9.4 years ago by
Jautis
▴ 580
4
votes
2
replies
13k
views
Answer:
A: Calculating the bisulfite conversion rate
updated 5.1 years ago by
Ram
44k • written 9.4 years ago by
Jautis
▴ 580
0
votes
0
replies
2.0k
views
Comment:
C: vcftools minDP filter not working for samtools genotype calling output
5.1 years ago by
Jautis
▴ 580
1
vote
2
replies
2.0k
views
vcftools minDP filter not working for samtools genotype calling output
genotype filtering
SNP
SNP-calling
5.1 years ago by
Jautis
▴ 580
0
votes
1
reply
1.2k
views
Efficiently run blat for long sequences
blat
alignment
sequence
assembly
updated 5.2 years ago by
Vitis
★ 2.6k • written 5.2 years ago by
Jautis
▴ 580
1
vote
1
reply
1.5k
views
Annotate CpG Islands for a new genome
CpG
assembly
annotation
updated 5.6 years ago by
vkkodali_ncbi
★ 3.8k • written 5.6 years ago by
Jautis
▴ 580
1
vote
8
replies
2.8k
views
Error in transferring annotations to a new assembly using RATT
alignment
annotation
software error
Assembly
updated 5.8 years ago by
h.mon
35k • written 5.9 years ago by
Jautis
▴ 580
0
votes
2
replies
2.8k
views
Comment:
C: Error in transferring annotations to a new assembly using RATT
5.9 years ago by
Jautis
▴ 580
0
votes
2
replies
2.8k
views
Comment:
C: Error in transferring annotations to a new assembly using RATT
5.9 years ago by
Jautis
▴ 580
2
votes
1
reply
2.7k
views
Create a pseudo-haploid fasta file based genotype calls for an individual (vcf file)
vcf
sequence
assembly
SNP
updated 6.1 years ago by
Len Trigg
★ 1.6k • written 6.1 years ago by
Jautis
▴ 580
0
votes
0
replies
1.1k
views
Find SNPs which disrupt CpG sites
vcf
genome
variants
6.1 years ago by
Jautis
▴ 580
0
votes
0
replies
1.6k
views
Determine the derived allele
alignment
6.3 years ago by
Jautis
▴ 580
0
votes
0
replies
2.9k
views
Comment:
C: GOseq with non-supported organism
6.3 years ago by
Jautis
▴ 580
1
vote
2
replies
2.9k
views
GOseq with non-supported organism
GO
GOseq
R
6.3 years ago by
Jautis
▴ 580
0
votes
1
reply
1.7k
views
Comment:
C: Find chromosomal location of a scaffold
6.4 years ago by
Jautis
▴ 580
0
votes
1
reply
1.7k
views
Comment:
C: Find chromosomal location of a scaffold
6.4 years ago by
Jautis
▴ 580
1
vote
5
replies
1.7k
views
Find chromosomal location of a scaffold
genome
mapping
updated 6.4 years ago by
h.mon
35k • written 6.4 years ago by
Jautis
▴ 580
0
votes
1
reply
3.9k
views
Comment:
C: Convert an altered sam file into a bam file
7.0 years ago by
Jautis
▴ 580
3
votes
4
replies
3.9k
views
Convert an altered sam file into a bam file
sam
bam
sequencing
7.0 years ago by
Jautis
▴ 580
0
votes
0
replies
1.9k
views
BSMap to Bismark bam file formats
next-gen
sequencing
bam
bisulfite
7.0 years ago by
Jautis
▴ 580
0
votes
0
replies
1.3k
views
Comment:
C: Genotype calls for a list of variable sites
7.1 years ago by
Jautis
▴ 580
0
votes
2
replies
1.3k
views
Genotype calls for a list of variable sites
genotype-calling
GATK
variant-calling
updated 7.1 years ago by
Pierre Lindenbaum
164k • written 7.1 years ago by
Jautis
▴ 580
1
vote
0
replies
7.5k
views
Comment:
C: Modifying fasta file based on vcf information
7.5 years ago by
Jautis
▴ 580
10
votes
4
replies
6.4k
views
Comparing two phylogenies
covariance
phylogeny
tree
updated 2.2 years ago by
Ram
44k • written 9.2 years ago by
Jautis
▴ 580
0
votes
1
reply
2.0k
views
Comment:
C: Outputting DP4 flag in GATK
7.7 years ago by
Jautis
▴ 580
2
votes
3
replies
2.0k
views
Outputting DP4 flag in GATK
variant calling
sequencing
gatk
updated 7.7 years ago by
Santosh Anand
5.8k • written 7.7 years ago by
Jautis
▴ 580
0
votes
1
reply
1.8k
views
Comment:
C: Getting reads that end at a digest site from a sam/bam file
7.7 years ago by
Jautis
▴ 580
0
votes
0
replies
1.8k
views
Comment:
C: Getting reads that end at a digest site from a sam/bam file
7.7 years ago by
Jautis
▴ 580
0
votes
7
replies
1.8k
views
Getting reads that end at a digest site from a sam/bam file
bisulfite
digest
updated 7.7 years ago by
Pierre Lindenbaum
164k • written 7.7 years ago by
Jautis
▴ 580
0
votes
1
reply
1.8k
views
Comment:
C: Getting reads that end at a digest site from a sam/bam file
7.7 years ago by
Jautis
▴ 580
0
votes
1
reply
1.9k
views
Calling allele-specific methylation from bisulfite sequencing reads
bisulfite-sequencing
allele-specific
sequencing
updated 7.8 years ago by
dariober
15k • written 7.8 years ago by
Jautis
▴ 580
1
vote
1
reply
6.2k
views
Comment:
C: Downsampling bam file to 2x coverage
7.9 years ago by
Jautis
▴ 580
0
votes
1
reply
4.0k
views
Comment:
C: Numbers of Samples per Lane in RNAseq
7.9 years ago by
Jautis
▴ 580
0
votes
2
replies
6.2k
views
Comment:
C: Downsampling bam file to 2x coverage
7.9 years ago by
Jautis
▴ 580
0
votes
1
reply
4.0k
views
Comment:
C: Numbers of Samples per Lane in RNAseq
7.9 years ago by
Jautis
▴ 580
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