Profile Posts Awards
Show
all questions tools blogs news tutorials forum answers comments
Showing : questions
0
votes
0
replies
118
views
Annotation transfer between QuPath (H&E) and 10X spatial transcriptomics Visium
alignment seurat spaceranger visium
6 weeks ago by Nicolas Rosewick 10k
17
votes
14
replies
30k
views
13 follow
Merge Paired-End Reads
fastq
updated 12 months ago by 43k • written 12.5 years ago by 10k
5
votes
4
replies
3.6k
views
hg19 interval list
gatk genome interval hg19
updated 22 months ago by 4.2k • written 5.0 years ago by 10k
1
vote
0
replies
461
views
GWAS : normalization of continuous phenotype across different cohorts
gwas normalization
2.2 years ago by Nicolas Rosewick 10k
0
votes
6
replies
2.1k
views
plink : Batch effect issues after merge of two datasets
plink merge
updated 2.3 years ago by • 0 • written 3.1 years ago by 10k
2
votes
7
replies
6.4k
views
6 follow
GATK genomicsDBimport intervals for WGS
gatk genomicsdbimport
updated 2.8 years ago by ▴ 260 • written 5.0 years ago by 10k
7
votes
2
replies
6.1k
views
Trinity : How To Co-Assemble Different Samples (Tumor And Healthy)
trinity assembly transcriptome
updated 2.8 years ago by ▴ 20 • written 12.1 years ago by 10k
9
votes
5
replies
8.3k
views
R : How To Compute The Melting Temperature Tm
r
updated 23 months ago by ▴ 90 • written 11.4 years ago by 10k
0
votes
0
replies
676
views
Where to find SNP genotype information for ENCODE samples
encode genotype
3.5 years ago by Nicolas Rosewick 10k
1
vote
0
replies
634
views
Spatial Transcriptomics : Compute expression correlation between two adjacent slides (technical replicates)
spatial transcriptomics
3.8 years ago by Nicolas Rosewick 10k
7
votes
1
reply
3.4k
views
How to force GATK haplotypecaller to output all genomic position (even non variant positions)
GATK haplotypecaller
updated 4.0 years ago by ▴ 750 • written 4.0 years ago by 10k
4
votes
3
replies
2.3k
views
vcfanno: issues to annotate VCF with gnomAD r3.0
vcfanno gnomAD
updated 4.1 years ago by 43k • written 4.1 years ago by 10k
0
votes
0
replies
804
views
Genome Nexus : API access through R
Genome Nexus API R
4.1 years ago by Nicolas Rosewick 10k
24
votes
16
replies
9.2k
views
GenomicRanges : How to reduce a GRanges by gene
genomicranges granges reduce R
updated 4.2 years ago by 81k • written 4.8 years ago by 10k
4
votes
0
replies
2.6k
views
Extract gnomad AF for specific position and REF/ALT allele with R
R gnomad af allele frequency annotation
4.3 years ago by Nicolas Rosewick 10k
5
votes
5
replies
1.5k
views
Germline - somatic mutation co-occurrence analysis
mutation co-occurrence
4.4 years ago by Nicolas Rosewick 10k
4
votes
2
replies
2.2k
views
Missing SNP in gnomAD hg38 liftover vcfs
gnomad SNP
4.5 years ago by Nicolas Rosewick 10k
1
vote
1
reply
1.4k
views
hap.py roc curve plot
hap.py roc
4.5 years ago by Nicolas Rosewick 10k
4
votes
2
replies
997
views
Analysis of exome samples build from different exome kits
exome gatk interval
4.6 years ago by Nicolas Rosewick 10k
0
votes
0
replies
816
views
Number of samples with rare mutation per gene in gnomAD
gnomad mutation
4.8 years ago by Nicolas Rosewick 10k
4
votes
2
replies
1.8k
views
How to predict sample ethnicty from a VCF using 1000G or gnomAD ?
SNP ethnicity vcf gnomad 1000g
updated 4.8 years ago by 47k • written 4.8 years ago by 10k
2
votes
6
replies
6.2k
views
6 follow
RNA-Seq analysis across different species
RNA-Seq species
updated 21 months ago by 43k • written 9.0 years ago by 10k
7
votes
6
replies
1.5k
views
What to pay attention when analyzing RNA-Seq samples from FFPE ?
RNA-Seq ffpe
updated 4.9 years ago by 8.9k • written 4.9 years ago by 10k
2
votes
3
replies
3.0k
views
Fusion Isoform Quantification
fusion isoform
updated 4.9 years ago by 20 • written 10.1 years ago by 10k
0
votes
1
reply
1.4k
views
Mutation Co-occurence and exclusivity
mutation co-occurence exclusivity
updated 5.0 years ago by 20 • written 5.1 years ago by 10k
5
votes
4
replies
4.3k
views
Extract allele count from gnomAD using R
R gnomad
updated 5.1 years ago by 11k • written 5.1 years ago by 10k
4
votes
8
replies
8.9k
views
Annotate Multiple Alignment (Clustalw)
clustalw annotation multiple
updated 5.2 years ago by • 0 • written 12.1 years ago by 10k
12
votes
3
replies
22k
views
bigwig to peak
peak bigwig chip-seq
updated 2.4 years ago by 43k • written 9.8 years ago by 10k
5
votes
5
replies
3.4k
views
Correlation between methylation (450K) and gene expression (RNA-Seq)
RNA-Seq 450K
updated 20 months ago by 43k • written 8.4 years ago by 10k
4
votes
8
replies
5.6k
views
Extract Only Paired-End Reads That Map A Specific Interval
bedtools extraction
updated 5.5 years ago by • 0 • written 11.6 years ago by 10k
4
votes
2
replies
7.3k
views
GRanges : setdiff and keep extra columns
GenomicRanges
updated 5.6 years ago by 87k • written 6.8 years ago by 10k
7
votes
4
replies
1.6k
views
Dummy / simulated genomic data
data dummy simulated
5.8 years ago by Nicolas Rosewick 10k
2
votes
8
replies
10k
views
Size of typical genomic data
genomic
updated 12 months ago by 43k • written 5.9 years ago by 10k
159
votes
24
replies
62k
views
19 follow
Recommended Tools For Alternative Splicing Detection From Rna-Seq Data
alternative-splicing splicing rna-seq
updated 10 months ago by 43k • written 11.1 years ago by 10k
1
vote
5
replies
2.4k
views
Consensus Sequence And Assembly Of Multiple Group Of Sequences
consensus
updated 6.2 years ago by 20 • written 10.6 years ago by 10k
0
votes
2
replies
2.5k
views
R ShortRead : Merge list of ShortReadQ object
ShortRead R fastq
updated 6.2 years ago by ★ 2.0k • written 6.8 years ago by 10k
5
votes
1
reply
2.1k
views
Annotate A Genome With A Well Annotated Related Species
annotation genome
updated 6.2 years ago by 20 • written 11.8 years ago by 10k
0
votes
1
reply
1.1k
views
Biostars API : retrieve only original questions not answers or comment
biostars api
6.3 years ago by Nicolas Rosewick 10k
3
votes
2
replies
8.8k
views
fgbio: Calling consensus reads using UMI
fgbio consensus
updated 6.3 years ago by ▴ 70 • written 6.3 years ago by 10k
1
vote
2
replies
3.9k
views
Chimeric alignment with minimap2
minimap2 nanopore chimeric
updated 5 months ago by ▴ 140 • written 6.3 years ago by 10k
5
votes
1
reply
2.2k
views
Detection of chimeric / fusion transcript using nanopore long reads
nanopore chimeric
6.4 years ago by Nicolas Rosewick 10k
1
vote
7
replies
2.0k
views
Trim read-specific adapter in paired-end reads
adapter trim
6.4 years ago by Nicolas Rosewick 10k
1
vote
2
replies
3.4k
views
UMI-tools: reads with different sizes in the same UMI group
UMI-tools group reads
6.5 years ago by Nicolas Rosewick 10k
2
votes
5
replies
3.8k
views
Cuffmerge : Why It Didn'T Merge These Transcripts Into One ?
cuffmerge transcript
updated 6.5 years ago by 20 • written 10.9 years ago by 10k
1
vote
1
reply
2.3k
views
bowtie2 : different MAPQ if -k is set
bowtie2 mapq
updated 6.5 years ago by 35k • written 6.5 years ago by 10k
4
votes
2
replies
3.4k
views
Is PICARD CollectInsertSizeMetrics use soft-clipping information to compute the insert size ?
picard insert size soft-clipping
updated 6.7 years ago by 161k • written 6.7 years ago by 10k
4
votes
4
replies
3.0k
views
Kallisto : Compare TPM between samples from different illumina sequencers (HiSeq2000 and NextSeq500)
kallisto TPM
updated 6.8 years ago by 6.5k • written 6.8 years ago by 10k
3
votes
5
replies
3.2k
views
Use kallisto with ONT (nanopore) cDNA long reads
nanopore kallisto long reads
6.8 years ago by Nicolas Rosewick 10k
4
votes
4
replies
1.9k
views
Clumpify : issues with consensus mode (reverse complement of R1)
clumpify consensus
updated 6.8 years ago by 20k • written 6.8 years ago by 10k
0
votes
7
replies
4.1k
views
Extract consensus sequence reads (collapse PCR duplicates) from bam
umi PCR consensus sequence
6.8 years ago by Nicolas Rosewick 10k
211 results • Page 1 of 5
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6