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0 votes
14 replies
5.7K views
CNVKIT - unable to produce scatter and diagram pdfs
cnvkit
updated by Anitha 1 • | written by ww22runner 6
0 votes
1 reply
974 views
Generating .bed file and .map file for polyploid vcf file through plink
bed polyploid map plink
updated by chrchang523 1.1K • | written by Bushra Bibi 8
0 votes
0 replies
568 views
lncRNA
tcga lncrna
written by jain72744 1
0 votes
1 reply
812 views
Nomalization - TCGA, RNA-seq and Microarray
tcga rna-seq nomalization microarray
updated by Zhenyu Zhang 130 • | written by jain72744 1
0 votes
5 replies
2.3K views
Tissue-specific DEG analysis with DEseq2
deseq2 rna-seq deg r
updated by arctic 4 • | written by M. 4
0 votes
2 replies
1.9K views
How to remove multiple batch effects from RNA-seq data before limma differential gene expression analysis?
combat-seq limma rna-seq removebatcheffect batch-effect
updated by Ram 4.5K • | written by t.fortunato.asquini 1
0 votes
2 replies
892 views
Output file of samtools flagstat empty
samtools-flagstat
updated by colindaven 844 • | written by ramendra.sarma 0
0 votes
8 replies
2.6K views
joint callset and vcf sorting, unknown TAG issue
sort bcftools glnexus merge vcf
updated by Pierre Lindenbaum 17K • | written by Matteo Ungaro 16
0 votes
0 replies
674 views
News: Online course: An Introduction to Nanopore Direct RNA Sequencing
nanopore rnaseq
written by Physalia-courses 281
1 vote
1 reply
2.0K views
input file in rmats
rmats
updated by Mathew 22 • | written by Lambodarswain316 1
0 votes
3 replies
15K views
Kraken2 database
kraken microbialdb database krakendb kraken2
updated by Mathew 22 • | written by Christopher 1
0 votes
7 replies
2.7K views
Longest transcript variant per gene
transcript longest variant orthofinder
written by san96 19
0 votes
3 replies
2.3K views
error in fun(x((i)), ...) : only defined on a data frame with all numeric alike variables
studio cibersort r
written by Azra 1
0 votes
1 reply
943 views
Failed to open VCF file
gatk sentieon bwa-mem
updated by Pierre Lindenbaum 17K • | written by melissachua90 7
2 votes
7 replies
9.4K views
Align paired and unpaired reads simultaneously using Bowtie2?
alignment
updated by RT 0 • | written by xiaozhongzhiping 2
0 votes
4 replies
1.7K views
Adata.raw.X in LIANA, something wrong with conversion from Seurat to adata in python.
k
written by beginner123 0
3 votes
6 replies
16K views
Trimmomatic: What is the difference between paired and unpaired output files in paired-end mode
trimmomatic paired-end
updated by Carlo Yague 906 • | written by dllopezr 14
0 votes
2 replies
993 views
java.nio.bufferunderflowexception haplotypecaller error for bqsr reads
deducplicated java.nio.bufferunderflowexception haplotypecaller bqsr
written by Bushra Bibi 8
0 votes
11 replies
2.6K views
In IGV is this a heterogeneous mutation or false call?
mutations igv heterogeneous
written by Tuck898 0
0 votes
3 replies
1.1K views
what is another word for a BLAST "hit"?
blast alignment
written by dec986 38
0 votes
1 reply
562 views
extract viral protein of interest from 10k whole viral genomes
nblast viral-genome
updated by Ram 4.5K • | written by Shwetha 0
0 votes
0 replies
623 views
Marker Features variance by cluster, sample, and treatment group
seurat scatac-seq archr
updated by Ram 4.5K • | written by naomiboldon 0
0 votes
3 replies
1.5K views
How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
gatk vcf liftover
updated by Ram 4.5K • | written by Omics data mining 26
2 votes
6 replies
14K views
samtools tview symbols
samtools
updated by Ashutosh Pandey 1.2K • | written by biolab 143
0 votes
9 replies
2.6K views
Filtering Multi-sample VCF file for all except one Genotype
variant snp vcf
updated by Pierre Lindenbaum 17K • | written by schmince 0
0 votes
5 replies
1.5K views
Too many unpaired forward reads found by Trimmomatic
trimmomatic
written by SilhouetteQ 0
0 votes
1 reply
886 views
Alignment of samples with spike-in
alignment multimapping rna-seq chip-seq spike-in
updated by GenoMax 16K • | written by maria.soler 0
0 votes
2 replies
865 views
How are score_weights calculated in this code?
single-cell
written by carolofharvest 6
0 votes
1 reply
935 views
How to convert Haps file to vcf file?
pre-phasing gwas imputation
updated by curious 90 • | written by SeoG 1
0 votes
0 replies
631 views
Trouble converting tfam and tped to map and ped files
plink ped tfam tped map
written by Samantha 0
0 votes
1 reply
780 views
Microbial Signal Transduction Database
mist
updated by zx8754 1.2K • | written by Shravani 0
0 votes
1 reply
1.2K views
DESeq2 error
deseq2
updated by ATpoint 9.1K • | written by sooni 2
0 votes
0 replies
652 views
Allele specific expression of imprinted gens from 10x scRNA-seq data
scrna-seq imprinted 10x genes
written by singcell 1
0 votes
1 reply
832 views
When should I use R-MarkDown over R-Script ?
r rscript rmarkdown
updated by ATpoint 9.1K • | written by Amr 18
0 votes
2 replies
933 views
LncRNA Nomenclature
enst nomenclature lncrna gbb ensg
written by jain72744 1
1 vote
2 replies
1.3K views
EdgeR - relationship between logFC and coefficients
differential-expression r edger
updated by Gordon Smyth 916 • | written by BioStar55555 1
0 votes
5 replies
1.8K views
Importing a fastq file
fastq
updated by size_t 12 • | written by oumo 0
0 votes
1 reply
829 views
Question about methylation location
methylation wgbs bisulfide
updated by dthorbur 350 • | written by Eren 0
0 votes
0 replies
744 views
Krona Pie-chart taxanomy IDs were not found warning. Taxonomy Classification Metagenomics
classification metagenomics krona kraken2
written by Aytaç 0
0 votes
0 replies
656 views
How do I calculate SE or P value if I only have BETA
prscsx beta se pvalue
updated by zx8754 1.2K • | written by curious_butterfly 0
0 votes
0 replies
1.1K views
supervised admixture
supervised admixture
written by RT 2
2 votes
0 replies
670 views
News: course on Landscape Genomics at the EPFL in Lausanne (June 17-21)
landscapegenomics snps localadaptation gis
written by Physalia-courses 281
0 votes
8 replies
2.0K views
Different output for read length
samtools bam
written by marco.barr 22
0 votes
1 reply
1.0K views
Snakemake fails to find conda in PBS
snakemake
updated by tim.booth 11 • | written by yixinzeng 0
0 votes
2 replies
862 views
Presence of unknown sites in ANNOVAR output file
annovar
updated by Ram 4.5K • | written by sainavyav22 0
1 vote
4 replies
3.0K views
Truncated metadata file report from ENA Portal API
ena python
written by Giulia 0
0 votes
0 replies
601 views
What is workflow for de-novo assembling of nuclear and mito genomes of non-model organisms
de-novo wgs dna-seq assembling
written by Matvii Mykhailichenko 2
1 vote
3 replies
3.8K views
JASPAR2024_getMatrixSet error
jaspar2024 getmatrixset
updated by Ram 4.5K • | written by maplewj 2
0 votes
5 replies
1.6K views
How to convert normalized BigWig file to count matrix?
count-matrix bigwig
written by feather-W 0
0 votes
3 replies
1.3K views
bcftools - reducing to "sites-only"?
sites-only bcftools
updated by Pierre Lindenbaum 17K • | written by Matthew 1
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