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1 vote
2 replies
1.1K views
Short tandem repeat (STR) expansions identificaiton workflow from RNA-seq data
rna-seq str
updated by Ram 4.5K • | written by Shicheng Guo 963
0 votes
0 replies
616 views
CNVkit metrics normal range
cnvkit cnv metrics
written by Mateo 0
0 votes
7 replies
2.8K views
Generate Max Number of DNA Sequences separated by a given Hamming distance
hamming-distance barcode variants dna
written by rtrende 8
0 votes
1 reply
910 views
Canu Output Explanation
fungi canu genome assembly
updated by JC 1.3K • | written by SomeOne 33
0 votes
4 replies
1.5K views
Recommendations for performing Bulk RNA sequencing on non-model organism with poor genome annotation?
rna-seq
updated by Trivas 191 • | written by Mark 6
0 votes
1 reply
2.7K views
Can I use snp data for iqtree?
alignment vcf iqtree variant-calling
updated by Ram 4.5K • | written by ylkim9 0
2 votes
5 replies
3.5K views
LD Pruning in GWAS
plink pca pruning ld gwas
updated by LauferVA 497 • | written by Smriti 4
0 votes
2 replies
1.2K views
Adapter trimming WGS Illumina DNA PCR free kit with BBduk
bbduk adapter-trimming wgs
written by omicsfury 0
0 votes
3 replies
1.8K views
Seeking Advice on Using `edgeR` and `variancePartition` for RNA-seq Data with Multiple Tissues and Patients
linear-mixed edger modeling variancepartition
updated by Gordon Smyth 916 • | written by h.moosavi57 0
0 votes
1 reply
965 views
How to create a phylogenetic tree
need i help some
updated by Joe 2.2K • | written by anna 0
0 votes
1 reply
1.8K views
Converting vg and gfa files?
gfa pangenome vg graphs
updated by colindaven 844 • | written by guntul 4
0 votes
0 replies
521 views
Using RSEM after Cuffcompare
rna-seq cuffcompare rsem
written by ZZOYEA 2
0 votes
3 replies
1.9K views
Convert "Locus Tag" to a RefSeq ID or ENSEMBL ID
rna-seq
updated by GenoMax 16K • | written by min 0
0 votes
3 replies
938 views
Single cell whole genome sequence
single-cell wgs
updated by GenoMax 16K • | written by drajangirija 1
0 votes
0 replies
541 views
In the absence of lncRNA annotations, how to screen out reliable lncRNA?
synthetic plant lncrna
written by 晨 0
0 votes
1 reply
1.1K views
Met 500 data
somatic-variation copy-number
updated by Kevin Blighe 9.0K • | written by maryak 2
0 votes
3 replies
1.3K views
3 samples (control) vs 3 samples (condition) 100M coverage data
reads
updated by Kevin Blighe 9.0K • | written by shinyjj 7
0 votes
2 replies
1.6K views
Explaining my heatmap for PC1 and my PC2 with gene list
pca heatmap
updated by Kevin Blighe 9.0K • | written by Pumla 0
0 votes
1 reply
1.7K views
How to deal with warnings from PLINK while performing QC using HAPMAP data ?
qc hapmap plink gwas
updated by Kevin Blighe 9.0K • | written by Yugan Gogul Muthukumar 3
0 votes
1 reply
1.4K views
GWAS on traits non-normally distributed
normality gwas phenotypes
updated by Kevin Blighe 9.0K • | written by Noctiluca 0
0 votes
14 replies
4.0K views
DEseq2 on expected counts
deseq2 normalize raw-counts
updated by Kevin Blighe 9.0K • | written by lyan125 1
0 votes
2 replies
1.1K views
VCF files
gatk vcf homo-sapiens
updated by Kevin Blighe 9.0K • | written by Sanazarghami4444 0
0 votes
1 reply
989 views
Values of relatedness matrix exceed 0 and 1
cgta matrix snpgdsgrm relatedness
updated by Kevin Blighe 9.0K • | written by csak_anna 0
0 votes
1 reply
1.3K views
Downloading metadata of all insect SRA sequences from NCBI SRA
database ncbi sra
updated by Philipp Bayer 888 • | written by nitinra 5
0 votes
3 replies
1.1K views
Pfam only identifies collagen
rna-seq lncrna
updated by Ram 4.5K • | written by Eduarda 0
0 votes
1 reply
886 views
How to split the aligned output from SortMeRNA into forward and reverse sequences
metatranscriptomic sortmerna
updated by Pierre Lindenbaum 17K • | written by eimanpharmacist 2
0 votes
5 replies
2.1K views
Remove part of a header in a fasta file
fasta
updated by bk11 312 • | written by kcl58759 0
0 votes
3 replies
3.4K views
rna-seq heatmap z-score calculation - TPM?
heatmap rnaseq
updated by ATpoint 9.1K • | written by lyc1ne 0
0 votes
1 reply
953 views
Sampling distribution of cosine similarity
rna-seq
updated by james.hawley 10 • | written by jayeshkumarsundaram 1
0 votes
1 reply
916 views
usually retained introns
intron alternative retention splicing
updated by Eric Lim 217 • | written by adi.gershon1 1
2 votes
2 replies
1.3K views
How to Handle Unbalanced RNA-seq Data (710 vs. 15 Samples) Using DESeq2?
r deseq2 unbalanced rna-seq groups
updated by Trivas 191 • | written by Joe Kherery 15
0 votes
3 replies
1.4K views
Benchmark hg19 vcf by hs37d5 vcf
hs37d5 benchmark hg19 giab
updated by Pierre Lindenbaum 17K • | written by ThomasLam 0
0 votes
1 reply
858 views
How do you compare HLA allele frequencies between two populations?
allele-frequency hla
updated by dthorbur 350 • | written by Moschi 0
0 votes
4 replies
1.6K views
Heatmap for DEGs
seq heatmap rna
written by 4732b159 0
1 vote
0 replies
816 views
News: RNAseq and Single Cell Analysis Online Courses @ Edinburgh Genomics
rna-seq single-cell workshop
updated by Ram 4.5K • | written by Kat @ EdGe 1
0 votes
11 replies
3.0K views
Convert Gene ID To Gene Name
geneid
written by min 0
1 vote
5 replies
2.2K views
Converting GFA to rGFA
gfa
written by Ric 44
0 votes
0 replies
1.4K views
Blog: Metagenomics: Host DNA Removal or Not?
sequencing. shotgun metagenomics. metagenomic
written by Novogene 54
0 votes
8 replies
2.4K views
How to perform BLASTn on a large 348kb phage genome?
blastn
updated by GenoMax 16K • | written by inamswati09 0
0 votes
2 replies
2.0K views
Apply Plink2 Score - Error Invalid chromosome code
plink plink2 pgsc_calc plink2score
updated by Ruijiang HAN 1 • | written by h171linux 0
0 votes
4 replies
2.2K views
PLINK error doing a GWAS
phenotype plink covariates association gwas
updated by chrchang523 1.1K • | written by david.badenas.01 0
0 votes
6 replies
2.2K views
Analyzing PCA Clustering from PLINK Output
plink
written by Smriti 4
2 votes
17 replies
7.6K views
Current best practive to liftOver many SNVs from hg19 to GRCh38
liftover
written by User 7754 29
0 votes
6 replies
1.9K views
gene naming
gene-names ensembl blast
updated by GenoMax 16K • | written by sasogalaxy90 1
0 votes
3 replies
1.6K views
Affymetrix microarray
gene-expression probes microarray
updated by Ram 4.5K • | written by Shaimaa Gamal 1
0 votes
2 replies
1.2K views
Why does 1 variant produce 3 genes as a result?
gatk snpeff
updated by Kevin Blighe 9.0K • | written by mgranada3 6
0 votes
4 replies
1.8K views
Batch correction in RNAseq
rna-seq batch-correction
updated by Kevin Blighe 9.0K • | written by Esraa 0
0 votes
1 reply
1.4K views
WGCNA - dendogram: How to interpret alterations of clusters
clustering transcriptomics wgcna rna
updated by Ram 4.5K • | written by christiantd 0
0 votes
1 reply
1.8K views
Batch Effect Correction in RNA-seq Data Using SVA and DESeq2
sva batch deseq2 rna-seq
updated by Kevin Blighe 9.0K • | written by Nelo 2
0 votes
0 replies
668 views
News: Phylogenomics course
multispecies-coalescent-model bayesian-inference phylogenomics divergence-time maximum-likelihood
updated by Ram 4.5K • | written by Physalia-courses 281
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