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0 votes
0 replies
1.0K views
Job: Fall 2025 Comparative Biology PhD program and Graduate Ph.D. Fellowships, American Museum of Natural History
fellowships graduate-student ph.d.
written by Info-rggs • Info-rggs
0 votes
3 replies
1.2K views
Remove a specific DNA sequence from the middle of sequencing reads
filtering trimming fastq
updated by GenoMax GenoMax • written by Andrea.Wall • Andrea.Wall
0 votes
2 replies
861 views
Highly skewed distribution of differentially expressed (DE) genes
r rnaseq deseq2
updated by LChart LChart • written by Maria • Maria
0 votes
9 replies
1.9K views
Differential expression analysis between groups with varying cell proportions
scrna-seq seurat pseudobulk
updated by Bastien Hervé Bastien Hervé • written by AB AB
0 votes
1 reply
595 views
QIIME2 artifact in galaxy
help
updated by GenoMax GenoMax • written by mbyec18 • mbyec18
0 votes
2 replies
1.1K views
RNA-seq heatmaps: effective length, RPKM vs. CPM
edger rna-seq
updated by ATpoint ATpoint • written by bioinfo2345 • bioinfo2345
0 votes
4 replies
1.2K views
The definition of a gene
gene lncrna transcript
written by zizigolu zizigolu
0 votes
7 replies
1.6K views
Extracting single chromosome from WGS cram/bam files before downloading
vntr 1kg hgdp sgdp wgs
updated by Pierre Lindenbaum Pierre Lindenbaum • written by berndmann • berndmann
0 votes
0 replies
428 views
Performing sex-stratified analysis using regenie
regenie
updated by Ram Ram • written by derycine • derycine
0 votes
1 reply
777 views
variant calling through gatk
variant-calling vcf workflow gatk
written by ashaneev07 • ashaneev07
0 votes
2 replies
977 views
Downloading Raw Reads
reads rna
updated by colindaven colindaven • written by Jamie • Jamie
0 votes
1 reply
680 views
Good Dotplots for homogenous data (Seurat)
seurat dotplot
updated by yura.grabovska • yura.grabovska • written by carolofharvest • carolofharvest
0 votes
1 reply
1.2K views
1000 genome dataset download
admixture 1000genome iadmix fastngsadmix plink
updated by chrchang523 chrchang523 • written by Soohyun • Soohyun
0 votes
2 replies
1.1K views
Immunedeconv CIBERSORT
p-value immunedeconv cibersort
written by dy001 • dy001
0 votes
7 replies
2.5K views
errors in installing picard
picard
written by Meghan.T • Meghan.T
0 votes
5 replies
1.6K views
Bulk RNA seq PCA plot issues
rna-seq pca
written by karlensberg • karlensberg
0 votes
0 replies
627 views
News: Upcoming November Courses – Enhance Your Skills in Bioinformatics and Data Analysis
population-genomics scrna-seq rna-seq metagenomics genome-assembly
written by Physalia-courses Physalia-courses
0 votes
0 replies
473 views
SVA with intercept only
sva batch-correction
updated by Ram Ram • written by IM • IM
0 votes
2 replies
1.0K views
Problem in calling peak by MACS3
macs3
updated by ATpoint ATpoint • written by daffodil • daffodil
0 votes
1 reply
2.0K views
Using TCGABioLinks to query multiple cancer studies
rna-seq r tcga
updated by GenoMax GenoMax • written by ivykosater • ivykosater
0 votes
1 reply
1.3K views
News: Online Workshop - Bioinformatics Pipeline Development with Nextflow (November 13-15, 2024)
workshop nextflow rna-seq
written by ecSeq Bioinformatics • ecSeq Bioinformatics
0 votes
1 reply
820 views
Merging BAM files after alignment or restarting the workflow?
bam alignment
updated by GenoMax GenoMax • written by stanmih2 • stanmih2
0 votes
1 reply
608 views
Raw reads or raw counts for meta-analysis
meta-analysis rna-seq htseq star
updated by Ram Ram • written by a.stef.44 • a.stef.44
0 votes
7 replies
2.2K views
Can someone explain to me in relatively simple language how PCR primer, reverse primer, and probe sequences are generated?
reverse probe pcr primer
written by Ryan • Ryan
2 votes
12 replies
5.4K views
Tool: fastplong: ultrafast preprocessing and quality control for long reads
long-reads
updated by lieven.sterck lieven.sterck • written by chen chen
1 vote
8 replies
2.8K views
GEOquery issue
database geo geoquery
written by Jaber • Jaber
0 votes
0 replies
859 views
Need help with providing RNA Seq data to run braker.pl in ETP mode.
augustus gene-prediction rna-seq braker genemark
written by Vijith • Vijith
0 votes
2 replies
809 views
Can the CFD commercial code simulate multicellular flow in a tall cavity using the second-order scheme?
multicellular-flow
updated by GenoMax GenoMax • written by uthai • uthai
0 votes
1 reply
707 views
How to filter a reference genome for single copy genes?
busco genes single copy genome
updated by Pierre Lindenbaum Pierre Lindenbaum • written by Armin • Armin
1 vote
0 replies
1.2K views
Job: Full Time Bioinformatics Analyst: University of Connecticut: Computational Biology Core
bioinformatician
written by Jlw Jlw
0 votes
0 replies
386 views
How to obtain level 2 GO term from go_id?
r go-term
written by Chenfeng • Chenfeng
3 votes
0 replies
720 views
Blog: How Seurat PCA projection, KNN and MNN for label transfer work
r rna-seq scrna-seq pca
updated by Ram Ram • written by Ming Tommy Tang Ming Tommy Tang
0 votes
0 replies
617 views
News: RNAseq in non-model organisms (online course)
bioconductor pacbio rnaseq
written by Physalia-courses Physalia-courses
0 votes
3 replies
959 views
WGS sequence composition bias at read start
wgs
updated by GenoMax GenoMax • written by Mega • Mega
0 votes
2 replies
1.2K views
Does BWA-MEM 2 account for overlapping reads within the paired end data?
mapping calling variant reads
written by ayeraselvan • ayeraselvan
0 votes
0 replies
770 views
Forward strand alignment
qc gwas strand alignment
written by JJ • JJ
0 votes
2 replies
1.2K views
Is there an easy way to scrape a whole bunch of NCBI RefSeq FASTA from NCBI?
fasta genome ncbi
updated by shenwei356 shenwei356 • written by Mark • Mark
0 votes
0 replies
995 views
Trouble with CGenFF and Ligand Topology in GROMACS
cgneff protein-ligand gromacs md simulation
written by Mostafa • Mostafa
0 votes
3 replies
2.0K views
GTF merging with gffcompare
gtf merging annotation rna-long reads transcript
updated by Carlo Yague Carlo Yague • written by Mai.Nabil • Mai.Nabil
0 votes
2 replies
1.1K views
How methylation is annotated, and what is the number behind the cg.... annotation
methylation annotation
written by Peter • Peter
0 votes
1 reply
777 views
Rnbeads
rnbeads methylation dna r
updated by Ram Ram • written by AJ • AJ
0 votes
5 replies
1.9K views
Overlapping reads, how do we counter them while variant calling, haplotype calling, does it affect mapping?
reads
updated by Jeremy Leipzig Jeremy Leipzig • written by ayeraselvan • ayeraselvan
0 votes
1 reply
970 views
(Nextflow) Having trouble with a generic process to stitch together files that were split and then processed
nextflow
updated by Pierre Lindenbaum Pierre Lindenbaum • written by sodiumnitrate • sodiumnitrate
0 votes
5 replies
1.9K views
Gene set enrichment analysis gives a lot of "significant pathways"
kegg gesa hallmarks
written by Nona • Nona
0 votes
2 replies
955 views
How can I check if a variant affects a TFBS?
variant tfbs
written by Tania Tania
0 votes
0 replies
431 views
How to estimate haplotype number from pooled dna sequences from blood samples
sequences haplotype pooled
written by Arline • Arline
0 votes
0 replies
415 views
Deduplication when performing copy number analysis
cnv copy-number
updated by Ram Ram • written by Kenji YT • Kenji YT
0 votes
2 replies
938 views
intersection of vcf files with bcf isec - no header
isec bcftools vcf
written by jasminestaples1 • jasminestaples1
0 votes
2 replies
1.1K views
Cell cluster that mainly consists of doublet.
doublet scrna-seq
updated by jared.andrews07 jared.andrews07 • written by D • D
0 votes
0 replies
768 views
Struggling with Meme-suite, looking for troubleshooting tips
atac-seq meme motifs
written by Ronin • Ronin
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