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121,896 results • Page 671 of 2438
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1
vote
4
replies
1.9k
views
samtools idxstats unplaced contigs
contig STAR samtools
updated 4.4 years ago by ★ 3.2k • written 4.4 years ago by ▴ 30
0
votes
2
replies
1.1k
views
16S data classification using kraken and centrifuge
centrifuge 16S classification kraken
updated 4.4 years ago by 21k • written 4.4 years ago by ▴ 10
0
votes
3
replies
1.2k
views
Differential expression analysis with LIMMA results
DGE
4.4 years ago by leticia ▴ 20
1
vote
2
replies
1.2k
views
How to parse all the Zn-binding protein sequences from MetalPDB?
PDB database NCBI protein python
4.4 years ago by Kumar ▴ 120
0
votes
0
replies
761
views
How to assemble short DNA sequences using ABYSS?
sequence multiple-alignment assembly
4.4 years ago by anikcropscience ▴ 270
1
vote
5
replies
3.5k
views
How to run SPAdes assembler with bam files?
spades assembler bam
4.4 years ago by marongiu.luigi ▴ 760
2
votes
1
reply
1.6k
views
Filter contig fasta file by GC content
contig gc
updated 4.4 years ago by 153k • written 4.4 years ago by • 0
0
votes
0
replies
804
views
DisGeNET plugin usage error
DisGeNET phenotype plugin vep
4.4 years ago by enes ▴ 40
0
votes
0
replies
703
views
negative BAF values OH
LOH cnvkit BAF
4.4 years ago by John • 0
1
vote
3
replies
2.6k
views
MASURCA output
masurca
updated 4.4 years ago by ★ 3.3k • written 4.4 years ago by ▴ 10
0
votes
0
replies
1.9k
views
Job: Research assistant in straining engineering at DTU Center of Biosustainability
engineering Biofoundry E.coli Strain
updated 2.5 years ago by 45k • written 4.4 years ago by ▴ 80
0
votes
0
replies
1.8k
views
Job: Research assistant for yeast natural products project at DTU Biosustain
yeast preps DNA DTU Biosustain CRISPR
4.4 years ago by info ▴ 80
1
vote
8
replies
2.1k
views
how to select peaks at not transcribed genes
bedtools transcribed peaks not_trasncribed
updated 4.4 years ago by 89k • written 4.4 years ago by ★ 1.3k
0
votes
0
replies
877
views
Job: Analytical chemist (RA) for yeast natural products project at DTU Biosustain
HPLC yeast biochemistry
4.4 years ago by info ▴ 80
21
votes
28
replies
8.9k
views
How to combine 2 incomplete GTF
Cufflinks Cuffcompare GTF Cuffmerge Merge
4.4 years ago by Rafael Soler ★ 1.3k
5
votes
4
replies
1.7k
views
R command worked yesterday, but stalls today?
R
4.4 years ago by cthangav ▴ 110
0
votes
4
replies
2.4k
views
Snakemake with bwa_mem2_mem unable to open the ref file and doesn' t work
bwa-mem2 conda snakemake pipeline
4.4 years ago by aka ▴ 10
5
votes
6
replies
6.5k
views
Extract chromosome 1 - 22 fasta file
fasta
updated 3.2 years ago by ▴ 60 • written 4.4 years ago by ▴ 40
1
vote
2
replies
2.0k
views
GATK GenomicsDBImport for consolidate GVCF
GATK GenomicsDBImport consolidate
4.4 years ago by mscpythonstudy • 0
0
votes
2
replies
859
views
Question about methods monitoring the change from dsDNA/RNA to ssRNA/DNA
RNA DNA chaser Substrate
4.4 years ago by Sophie • 0
1
vote
1
reply
920
views
SHAPEIT2 - ERROR "BAD RECOMBINATION RATE"
shapeit2 phasing
updated 4.4 years ago by 2.9k • written 4.4 years ago by ▴ 130
0
votes
0
replies
751
views
How to download pedigree (SNP's) from cattle
pedigree data snp inference haplotype
4.4 years ago by S. Roa ▴ 10
0
votes
0
replies
929
views
Job: Multiple data scientist positions in computational biomedicine
MachineLearning CompBiology
updated 4.2 years ago by 45k • written 4.4 years ago by ▴ 200
5
votes
5
replies
2.8k
views
GSEA for RNA_seq dataset
DEGs GSEA RNA-seq
updated 21 months ago by 45k • written 4.4 years ago by ▴ 20
4
votes
4
replies
1.7k
views
Hunting invisible characters?
adaptor adapter grep
updated 4.4 years ago by 11k • written 4.4 years ago by ▴ 140
0
votes
0
replies
790
views
Alternative Refence Allele in PLINK2 data files
PLINK2 ALLELE
4.4 years ago by carlstat123 • 0
4
votes
12
replies
4.1k
views
How can I Extract Transposable element from a new genome assembly?
genome transposons assembly annotations
4.4 years ago by jaqx008 ▴ 110
2
votes
1
reply
972
views
differential expression analysis
CRITERIA DEGS THRESOLD
updated 4.4 years ago by ★ 30k • written 4.4 years ago by ▴ 20
32
votes
6
replies
15k
views
Tutorial: A simple tutorial for a complex ComplexHeatmap
clustering pam arthritis ComplexHeatmap
updated 2.5 years ago by 45k • written 5.3 years ago by 89k
3
votes
2
replies
1.1k
views
SNP's datasets and pedigreees
SNP data inference haplotype pedigrees base
4.4 years ago by S. Roa ▴ 10
0
votes
4
replies
2.2k
views
Arlequin problem (different loci number among different genotypes)
SNP
4.4 years ago by wangh920 ▴ 10
6
votes
3
replies
5.4k
views
Tool: Clustering of short peptide sequences
peptide phage-display clustering
updated 3.0 years ago by 45k • written 10.0 years ago by ▴ 440
0
votes
14
replies
3.3k
views
File conversion from coordinates to genes
conversion
4.4 years ago by storm1907 ▴ 30
2
votes
1
reply
3.2k
views
Phylobayes, Tracecomp Output Interpretation
updated 4.4 years ago by • 0 • written 11.7 years ago by 11k
0
votes
0
replies
732
views
SECAPR issue
SECAPR reads trimmomatic pipeline alignement
4.4 years ago by Begonia_pavonina ▴ 210
1
vote
1
reply
1.0k
views
bulk RNA-seq contamination, lung ambient RNA
mouse bulkRNAseq contamination RNAseq analysis
updated 4.4 years ago by ★ 19k • written 4.4 years ago by ▴ 10
0
votes
1
reply
740
views
Multiply BED scores by a normalization factor in precise intervals in Granges object.
R
4.4 years ago by massimofaggiani • 0
14
votes
5
replies
7.6k
views
Which Fasta file and GTF file to use in STAR alignment
GTF fasta ENSEMBL STAR
updated 2.5 years ago by 45k • written 4.4 years ago by ▴ 40
0
votes
0
replies
1.3k
views
how to combined peak score or other quantitative indicator when identify TF target gene
ChIP-Seq
4.4 years ago by shangguandong1996 ▴ 30
3
votes
4
replies
4.7k
views
How to set variant FILTER in a VCF file based on overlap with regions in a BED file
annotation bed vcf
4.1 years ago by William ★ 5.4k
8
votes
8
replies
4.0k
views
6 follow
Forum: R - A bioinformatic analysis programming language for NGS
NGS R
updated 4.2 years ago by 45k • written 4.4 years ago by ▴ 510
6
votes
11
replies
3.1k
views
Meaning letters in TCGA sample barcode field
GDC Barcode TCGA
updated 4.4 years ago by 45k • written 4.4 years ago by ▴ 30
1
vote
0
replies
930
views
Methylation frequency + and - strand
methylation Bismark
4.4 years ago by Palgrave ▴ 140
0
votes
0
replies
801
views
Error : Fail to open file file.vcf for normalization with vt
normalization vt vcf
4.4 years ago by Nobody ▴ 30
0
votes
2
replies
1.4k
views
Salmon Script Troubleshooting for RNA Seq Data
NextGenerationSequencing RNAseq Bash Slurm Salmon
updated 4.4 years ago by 89k • written 4.4 years ago by • 0
0
votes
0
replies
589
views
Adjusting for the effect of other variables for DGEA in EdgeR
RNASeq edgeR DGEA
4.4 years ago by emilien.hourquet • 0
1
vote
1
reply
1.3k
views
Normalisation before edgeR for RNA-Seq
rna-seq edgeR
updated 4.4 years ago by 89k • written 4.4 years ago by ▴ 590
0
votes
3
replies
1.7k
views
short length amino acids
short amino acids alignment length
updated 4.4 years ago by 153k • written 4.4 years ago by • 0
0
votes
1
reply
1.1k
views
comparing enriched GO terms between species
RNA-Seq go annotation
updated 4.4 years ago by ▴ 20 • written 5.2 years ago by • 0
2
votes
4
replies
1.6k
views
MASURCA error for multiple entries
masurca
updated 4.4 years ago by 89k • written 4.4 years ago by ▴ 10
121,896 results • Page 671 of 2438
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Comment: Different UMAP for batch correction in R and Pytho
Answer: Is a direct comparison of the number of up- and down-regulated genes meaningful?
allele frequency in VCF
Comment: Best way to do protein structure guided similarity search?
Comment: Tool 'sra_source' does not exist.
Answer: TCGA -derived Large RangeSummarizeExperient file
Gnu Parallel - Parallelize Serial Command Line Programs Without Changing Them
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Comment: Transfer harmony-integrated scRNA-seq data to scanpy by Madiha ▴ 10
Hi, I am not sure if you still remmeber the solution you followed that time. But I am stuck with similar problem. scVI is not working good …
Answer: Pipeline for downloading, aligning, and curating influenza A and B sequences for by GenoMax 153k
Have you looked at https://nextstrain.org/ and specifically https://github.com/nextstrain/seasonal-flu Software is available to do the ana…
Comment: Different UMAP for batch correction in R and Pytho by GenoMax 153k
Use this tutorial for how to upload images: https://www.biostars.org/p/309884/#346553 Only difference is instead of using an external imag…
Answer: GTEx sQTL v8 – annotation version used? by GenoMax 153k
If you click over to the `Reference` tab ( https://gtexportal.org/home/downloads/adult-gtex/reference ), it looks like they used GENCODE v.…
Comment: How to Identify Conserved 21-mers Across TE Insertions in Drosophila? by manikin_python9f ▴ 20
Since they are transposons, we don’t know the exact location of them. We know their sequence of insertions from repeatmasker in dm6 genome.…
Comment: Tool 'sra_source' does not exist. by Atefeh • 0
Thanks for your kindness.
Comment: TCGA -derived Large RangeSummarizeExperient file by Tom • 0
It works well. Thank you very much ! @atpoint
Answer: TCGA -derived Large RangeSummarizeExperient file by ATpoint 89k
For the end user these `DFrames` are just regular data.frames, so you can do `col_data[,c("barcode", "patient", "whatever")]` or just do `a…
Comment: magpurify errors by shevch2009 ▴ 20
I have checked with my eyes, and I didn't find it, I have only one contig that starts with k127_458 .... but the name is different - k127_4…
Comment: Yeast reference-based genome assembly by Michael 56k
So, you aren't sure about the exact species? Then you might want to be careful with reference-based assembly in general. I recommend the fo…
Comment: Structural Variant identification on pangenome graphs by Panos ★ 1.8k
That's a very comprehensive list! Thanks for sharing! `minigraph` better suits my needs because all I need is SVs for my genomes. As far a…
Comment: Yeast reference-based genome assembly by amy967107 • 0
I have ~2.01 Gb of ONT data and the target genome is ~20–23 Mb (90–100× coverage). My ONT read N50 is ~3.8 kb, so contiguity may be limited…
Comment: Yeast reference-based genome assembly by amy967107 • 0
This is a yeast strain (probably Rhodotorula spp.) and I'm trying to assemble the entire genome from nanopore reads using a reference-based…
Answer: Yeast reference-based genome assembly by Michael 56k
The new [hifiassm ONT][1] may be all you need for getting a good assembly. I would not recommend LRSDAY, except for its annotation part (wh…
Comment: magpurify errors by Mensur Dlakic ★ 30k
By the way, these errors are not unique. If you look through the `magpurify` GitHub issues, both types have been reported already. - https…
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