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0 votes
0 replies
617 views
R code for KEGG pathways output
keggrest dplyr kegg r
written by doramora 1
0 votes
1 reply
767 views
finding highly divergent orthologs using exonerate
ortholog exonerate evolution
updated by dthorbur 350 • | written by Emily 2
0 votes
3 replies
1.5K views
How to calculate nucleotide diversity (mtDNA, PacBio_data), Suggest me some tools
nucleotidediversity mtdna pacbio
written by hashim.rana11 4
0 votes
1 reply
587 views
Does prokka work the same on forward and reverse complementary reads?
prokka
updated by Pierre Lindenbaum 17K • | written by Maksim 0
0 votes
2 replies
1.1K views
Trouble with PLINK's logistic regression analysis and covariatesTrouble with PLINK's logistic regression analysis and covariates
plink gwas snp
written by F110152169 0
0 votes
10 replies
4.8K views
Venter Genome Vcf
vcf
updated by Jeremy Leipzig 2.3K • | written by win 100
0 votes
0 replies
631 views
16S analysis for specie of bacteria identification
species-identification 16s kraken2
updated by Ram 4.5K • | written by Christopher 1
0 votes
0 replies
723 views
abundance_estimates_to_matrix.pl in Trinity is not generating any matrices / output
trinity
updated by GenoMax 16K • | written by jway 0
0 votes
3 replies
1.6K views
What is a good way to do gene differentials in single cell data where one group is small 90 cells and the other group 30,000 cells or 2000 cells.
cell rna-seq single
updated by ATpoint 9.1K • | written by shahzaibali 0
0 votes
2 replies
1.3K views
Trying to understand warning from MACS2 about too few paired peaks and differing results in DiffBind
macs2 atacseq diffbind
written by atan 0
0 votes
2 replies
1.3K views
What do the transcript variant # mean in RefSeq?
refseq
updated by Ram 4.5K • | written by curious 90
0 votes
7 replies
3.5K views
Mouse or Rat Gene Expression Data Similar to GTEx
whole-body expression atlas
updated by ATpoint 9.1K • | written by Shicheng Guo 963
1 vote
3 replies
1.6K views
Error when looping over multiple columns in a data frame in R
statistics r
updated by Jeremy 94 • | written by Mohamed Samir 3
2 votes
0 replies
1.3K views
Job: Permanent Position as Researcher/Computational Biologist at the National Genomics Infrastructure (Sweden)
genomics sequencing sweden stockholm scilifelab
written by Matthias Zepper 524
0 votes
1 reply
639 views
BEAST2.5 Chloroplast Divergence Time using Fossil Records
beast2.5 fossil
updated by Ram 4.5K • | written by a.bibek52 1
1 vote
7 replies
7.9K views
Difference in Bismark output methylation call files and coverage files
rrbs bismark dna-methylation
updated by Papyrus 310 • | written by linelr 4
3 votes
2 replies
1.3K views
Job: 2 PhD Students in single-cell bioinformatics
phd genomics single-cell ngs
written by mtabaka 3
0 votes
1 reply
1.1K views
minfi::getQC - badsamplecutoff 10.5
getqc minfi methylation epicv2
updated by Papyrus 310 • | written by June 0
0 votes
2 replies
1.8K views
minfi::getQC - is default badsamplecutoff of 10.5 always appropriate? ~half of samples fail by this measure
getqc ewas minfi
updated by June 0 • | written by rkb965 0
1 vote
6 replies
1.7K views
Error with BiocParallel. No barcodes files found
barcodes scrna-seq singlecellexperiment
written by bio_info 2
0 votes
3 replies
1.3K views
Unexpected read length from NGS
ngs illumina
written by QX 9
0 votes
7 replies
2.9K views
samtools write-index
samtools
written by R.L. 0
0 votes
3 replies
1.7K views
How do we do quantification using stringtie merge option for all the merged samples generated.
stringtie quantification
written by Varsha 0
0 votes
2 replies
1.2K views
How to interpret this plotMDS of three disease clusters?
microarray plotmds degs
updated by ATpoint 9.1K • | written by egascon 6
0 votes
0 replies
508 views
GWAS or QTL mapping in RIL population
gwas ril
written by 韩雨 0
0 votes
0 replies
566 views
VEP annotation tool: "." isn't numeric in addition (+)
vep vcf
updated by Ram 4.5K • | written by emma.a 13
1 vote
13 replies
24K views
log2 fold change in RNA-seq analysis
fold log2 change
updated by May Ling 1 • | written by wmsalsah 1
0 votes
1 reply
832 views
GWAS Phenotypes
gwas
updated by 韩雨 0 • | written by Onyeubani 9
0 votes
4 replies
12K views
Classic threshold for log2 fold change in RNA-seq experiment
rna-seq
updated by May Ling 1 • | written by Mozart 33
1 vote
1 reply
961 views
Cellranger-multi : Demultiplexing and Analyzing 5’ Immune Profiling Libraries Pooled with Hashtags
5inmuneprofiling nf-core scrnaseq cellranger-multi nextflow
updated by GenoMax 16K • | written by azeu 1
0 votes
0 replies
427 views
Assigning Micro-C read pairs to nucleosomes called from MNase-seq data?
hi-c mnase-seq
written by Linus 0
1 vote
3 replies
16K views
Z score in RNAseq
rna-seq zscore
updated by SKY 6 • | written by rob.costa1234 32
0 votes
1 reply
593 views
Free AI for R programming
r
updated by Ram 4.5K • | written by mohamadzare6022 1
1 vote
13 replies
8.1K views
Forum: Ideal PC configurations and operating system for bioinformatics laboratory
pc
updated by i.sudbery 2.3K • | written by Estevão 1
0 votes
1 reply
771 views
Extracting haplotype-specific annotations from splicing graph
vg
updated by Jordan M Eizenga 78 • | written by Juhyun 0
0 votes
0 replies
650 views
Phyloseq returning black bars for plot_bar
phyloseq bioconductor r
written by Jacob 0
1 vote
8 replies
3.2K views
Random Access remote BAM files
htslib bam
updated by a.penatauber 0 • | written by Lucas R.F. 2
0 votes
0 replies
461 views
Cancer vs Normal Cell Classification Based on SNVs
cancer
written by dglad 0
0 votes
4 replies
1.3K views
merge overlaps and remove non overlap genomic windows
bed intersection overlap
written by reza 30
0 votes
2 replies
1.3K views
Small secondary peak for per sequence GC content - FASTQC results (bulk RNA-seq)
rnaseq
updated by GenoMax 16K • | written by Fossil 3
1 vote
2 replies
1.5K views
Construction of circos plot from WGS data
wgs circos
written by Anitha 1
0 votes
3 replies
1.3K views
Trimmomatic running but files containing purged reads are empty
fastqc fastq trimmomatic
updated by GenoMax 16K • | written by Wilber0x 7
0 votes
0 replies
495 views
How to find nucleotide changes and the predicted effect when comparing two genomes
blast alignment
updated by Ram 4.5K • | written by Melissa 0
1 vote
3 replies
1.9K views
FastQC interpretation - 16S sequencing
interpretation amplicon fastqc 16s
updated by GenoMax 16K • | written by Christopher 1
0 votes
0 replies
772 views
Subset of ATAC-seq peaks has high variance
atac-seq edger r normalization
written by Tim 0
0 votes
6 replies
2.1K views
How to get the ratio of allele counts from GATK derived VCF file?
gatk vcf snp freebayes
written by anikcropscience 28
0 votes
0 replies
561 views
KEGG pathway enrichment analysis in Zea mays with R
kegg zea-mays r
updated by Ram 4.5K • | written by letizia.ottaviani 0
0 votes
6 replies
1.9K views
from CRAM to fastq
fastq wgs cram
updated by ATpoint 9.1K • | written by machaalani29 0
0 votes
0 replies
527 views
News: Bioinformatic Analysis of Transposable Elements course
genome-annotation te manual-curation transposable-elements
updated by Ram 4.5K • | written by Physalia-courses 281
0 votes
1 reply
653 views
No output when converting transcript IDs to gene symbols
rna-seq
updated by Ram 4.5K • | written by ashkan 16
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