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0 votes
3 replies
1.2K views
Manually creating a valid VCF File
vcf-validator vcf
updated by Bastien Hervé 680 • | written by Sara 0
0 votes
2 replies
1.6K views
Extraction of miRNA Sequences from Infernal cmscan Output Using Python
infernal assembly rna genome mirna
updated by massa.kassa.sc3na 65 • | written by Vijith 10
0 votes
12 replies
3.8K views
Forum: What bioinformatics codes would you use for performance benchmarking on a new system?
benchmarking
written by Dave Carlson 223
1 vote
3 replies
2.2K views
Beagle imputation error
imputation beagle
written by PKW 11
0 votes
5 replies
2.4K views
BioPython - qblast() timeout every time, running from python shell
qblast biopython blast ncbi
written by Ryan 0
0 votes
0 replies
790 views
News: Population Genomics course (online)
ngs populationgenomics introgression landscapegenomics gwas
written by Physalia-courses 281
0 votes
6 replies
2.4K views
how to effectively pipe chromap into samtools view
samtools bash pipe
written by Matteo Ungaro 16
1 vote
1 reply
1.2K views
Batch correction of whole genome bisulfite methylation data
wgbs
updated by jlshi.nudt 24 • | written by irfanwustl 9
0 votes
11 replies
3.1K views
How to solve DESeq2 Error in checkFullRank(modelMatrix) cause by biological replicates information?
deseq2 deseq
updated by swbarnes2 1.5K • | written by ace 0
0 votes
5 replies
1.9K views
Best workflow for identification of isoforms and splice variants
isoforms rna-seq variants splice
updated by dsull 781 • | written by Vojtěch 1
0 votes
0 replies
569 views
does genomics_general.py need both invariant sites and variant sites to calculate pi, FST and DXY
genomics_general
written by Maxine 5
0 votes
1 reply
881 views
CLC Genomics workbench and dbSNP VCF import
vcf
updated by GenoMax 16K • | written by むらい 0
0 votes
0 replies
657 views
Adding and removing sequences in Repeatmasker library (modifying library)
repeatmasker genome repeats
updated by Ram 4.5K • | written by MK 0
0 votes
2 replies
1.1K views
Whole Metagenome Analysis
metagenomics
written by karthick 1
0 votes
1 reply
4.0K views
Clarification on WGCNA Module-Trait Correlations, Interpretation, and Functional Annotation
wgcna
updated by LChart 518 • | written by Shaheer Syed 0
2 votes
2 replies
1.1K views
Appending a Poly-A Tail to a Reference Transcriptome
bowtie rnaseq ase transcriptome alignment
updated by GenoMax 16K • | written by jon.klonowski 21
0 votes
1 reply
1.8K views
Recovering summit position from ENCODE narrowPeak (BED6+4) format
summit idr peak-calling atac-seq
updated by olivia.doyle 0 • | written by Ready2Rapture 2
0 votes
1 reply
1.8K views
Unable to open HDF5 file
hdf5 seurat scrna-seq
updated by bk11 312 • | written by Christopher 0
0 votes
2 replies
1.3K views
How to use Diffbind to quantify signal in a set of custom peaks
atac-seq diffbind
written by enanoide 0
0 votes
1 reply
1.9K views
When should I normalize and subset adata objects in scanpy?
scanpy scrna-seq single-cell
updated by LChart 518 • | written by bioinfo 19
0 votes
2 replies
1.5K views
How to Fix "Error in checkForExperimentalReplicates(object, modelMatrix) :"?
deseqdatasetfrommatrix r coldata deseq2 rna-seq
written by thatolivebranch 0
0 votes
4 replies
2.5K views
Wildcards and regular expressions in snakemake
snakemake
updated by tim.booth 11 • | written by diop.awa94 0
0 votes
1 reply
1.4K views
AggregateExpression() with return.seurat=TRUE not working as expected
seurat seurat5 aggregateexpression
updated by Bastien Hervé 680 • | written by BIANCO 0
0 votes
0 replies
647 views
Checking to see if .hhm file output makes sense
hhblits
updated by GenoMax 16K • | written by jet 0
0 votes
1 reply
972 views
Background mutation rate from WGS
mutation-rate snp wgs variant
updated by Ram 4.5K • | written by massa.kassa.sc3na 65
0 votes
1 reply
1.1K views
Fetching records using Entrez
python pubmed entrez
updated by GenoMax 16K • | written by RAJ 0
0 votes
11 replies
3.2K views
Htseq-count problem with gtf/gff file
htseq
written by Andrea Chiara 0
0 votes
0 replies
684 views
Generating Protein sequence embeddings from alphafold
llm nlp embedding ai
updated by Ram 4.5K • | written by singhankit973 2
0 votes
1 reply
723 views
News: A Practical Hands-On Introduction to R
tidyverse r data-visualisation data-analysis ggplot2
updated by noze 0 • | written by Physalia-courses 281
0 votes
0 replies
664 views
Low demultiplex yield
gbs demultiplex adapterremoval axe
written by Steven 0
0 votes
2 replies
1.3K views
Where to find open access data of SNP arrays to perform GWAS
illumina humanomni affymetrix 550k
written by Yugan Gogul Muthukumar 3
0 votes
1 reply
933 views
unmapped reads Kallisto bulk RNA-seq
kallisto rna-seq unmapped-reads
updated by Ram 4.5K • | written by Irene 0
0 votes
4 replies
2.5K views
vg: How to find node Position and source(sample) ?
vg
written by zhang yi xing 5
0 votes
6 replies
2.7K views
which bed file should be used for deeptools computeMatrix
atac-seq deeptools
updated by Ming Tommy Tang 469 • | written by QX 9
0 votes
6 replies
1.7K views
Last against ncbi nr database
metagenomics virus alignment
written by Md Moinuddin 0
0 votes
1 reply
910 views
DESeq2 analysis of a chromosome region
gene-expression rna-seq deseq2
updated by BioinfGuru 214 • | written by Aron 0
0 votes
3 replies
1.3K views
Approaches to validate hits from CRISPR-screen in mice
crispr screen mice mageck
updated by jared.andrews07 1.9K • | written by GLG 1
0 votes
5 replies
1.8K views
Different strandedness from HISAT2 and STAR alignment
star strandedness rna-seq alignment hisat2
written by tianshenbio 20
0 votes
2 replies
2.0K views
Clarification on Reference Version in GATK Resource Bundle
gatk hg38 resource bundle
written by George 3
0 votes
1 reply
2.0K views
Tutorial: How to install R and Rstudio on macOS with M3 chip
rstats computational-biology
updated by Ram 4.5K • | written by Ming Tommy Tang 469
0 votes
0 replies
656 views
Substraction of GO terms to the whole ontology
terms ontology go
written by Francois Piumi 8
0 votes
2 replies
727 views
Human Genome
genome
updated by Pierre Lindenbaum 17K • | written by Ahmed 0
0 votes
0 replies
873 views
Convert Illumina Final Report.txt file into PLINK input files (.fam, .lgen, .ped etc)
plink
written by Alexandros.Frydas 3
0 votes
4 replies
1.7K views
What software and specific output files should I use to generate graphs from my Flye assembly??
pacbio galaxy-server flye
updated by GenoMax 16K • | written by hashim.rana11 4
0 votes
10 replies
2.4K views
Using featureCounts on HISTA2 aligned data for the tomato genome
hisat2 genome featurecounts alignment
written by duplessisantzel 0
0 votes
0 replies
598 views
Methylation count matrix METABRIC
m-values beta-values methylation metabric
updated by Ram 4.5K • | written by mewmewmew 0
0 votes
3 replies
1.1K views
DEG with several conditions
r gene-expression deseq2 rna-seq
updated by BioinfGuru 214 • | written by Kylie 0
0 votes
4 replies
4.4K views
Aspera ascp Command Fails with "Failed to open TCP connection for SSH" Error
aspera
updated by Michael Dondrup 5.6K • | written by Akansh 0
1 vote
11 replies
4.3K views
why R scripts are preferred to biopython for RNA-Seq analyses?
r python
updated by dariober 1.5K • | written by pinheirofabiano 14
0 votes
7 replies
3.9K views
space converted into dots in header name
r rstudio microbiome
updated by cpad0112 2.1K • | written by Bioinfonext 48
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