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121,903 results • Page 620 of 2439
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3
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4.0k
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Adding a chain ID (A or B etc) to my pdb file
pdb
updated 4.2 years ago by • 0 • written 4.6 years ago by • 0
0
votes
3
replies
3.9k
views
Problems running gatk - gatk: command not found
vcf bam gatk
updated 4.2 years ago by ★ 1.2k • written 4.2 years ago by ▴ 210
1
vote
0
replies
781
views
Job: Computational research positions, incl. postdoctoral scholars (recommender systems in genomics)
recommender Seattle visualization genomics
4.2 years ago by meuleman ▴ 10
0
votes
1
reply
1.2k
views
Exporting Genes/Molecules of interest from IPA Canonical Pathway
core export data analysis ipa
updated 4.2 years ago by • 0 • written 4.2 years ago by • 0
1
vote
3
replies
1.5k
views
TEMP ,Type checker found wrong number of fields while tokenizing data line.
bedtools TEMP transposabale elements
updated 4.2 years ago by 45k • written 4.2 years ago by • 0
0
votes
3
replies
1.0k
views
Tripal Fancy Fields
tripal
updated 4.2 years ago by 89k • written 4.2 years ago by ▴ 120
2
votes
2
replies
1.2k
views
How much would it cost to do a de novo assembly (plus annotation) of a jellifish genome?
novo genome de assembly budgeting
4.1 years ago by ilante ▴ 30
1
vote
3
replies
1.3k
views
how to do make differential expression of lncRNA from RNA-seq data
lncRNA mRNA RNA-seq
updated 4.2 years ago by ★ 2.6k • written 4.2 years ago by ▴ 30
1
vote
3
replies
1.6k
views
Filtering nuclear RNA expression instead of MT expression in Scanpy
filtering nRNA scanpy scRNAseq mtRNA
updated 2.7 years ago by • 0 • written 4.2 years ago by • 0
2
votes
3
replies
1.4k
views
How can download and read BAM and FASTQ format
fastq miseq BAM
updated 4.2 years ago by 15k • written 4.2 years ago by • 0
1
vote
3
replies
2.2k
views
log2 normalization produces NaNs
r
updated 2.8 years ago by 45k • written 4.2 years ago by ▴ 70
0
votes
1
reply
1.2k
views
RnBeads Greedycut command ???
greedycut rnbeads array methylation
updated 4.2 years ago by • 0 • written 5.0 years ago by ▴ 520
0
votes
3
replies
1.1k
views
Phylogeny Analysis tools
Phylogeny
updated 4.2 years ago by ★ 2.9k • written 4.2 years ago by ▴ 20
0
votes
3
replies
1.2k
views
how can I get alignment quality from bam index file?
NGS samtools galaxy
updated 2.2 years ago by 45k • written 4.2 years ago by ▴ 30
2
votes
5
replies
1.8k
views
Issue installing Plink
Plink
4.2 years ago by AndrMod • 0
3
votes
2
replies
1.1k
views
Suggestions for an undergraduate research project on glioblastoma
glioblastoma Python Cancer R
updated 4.2 years ago by 45k • written 4.2 years ago by ▴ 100
7
votes
7
replies
9.9k
views
Mummer To Viewable Alignment Format (Fasta Or Aln...)
genomics alignment
updated 4.2 years ago by • 0 • written 14.0 years ago by ★ 2.5k
0
votes
0
replies
1.0k
views
how to get effect sizes (R2) in result of GEMMA?
GEMMA SNP
updated 2.5 years ago by 45k • written 4.2 years ago by ▴ 170
0
votes
0
replies
597
views
miRNA to families
python families RNAseq miRNA R
4.2 years ago by ehruan ▴ 10
2
votes
7
replies
2.4k
views
Good QC Package (RSeQC or alternative) for Salmon mapping/quantification results?
RSeQC Salmon RNA-Seq mapping
updated 5 months ago by • 0 • written 4.2 years ago by ▴ 80
3
votes
0
replies
3.4k
views
Why does the Seurat FindMarkers function report different log fold change values than the FoldChange function?
single scRNA-seq cell RNA-Seq Seurat
4.2 years ago by imdoingascience ▴ 40
0
votes
1
reply
1.9k
views
High levels of duplicated reads Illumina from PCR-free libraries
fastqc PCR duplicate reads Illumina
updated 4.2 years ago by 153k • written 4.2 years ago by ▴ 40
12
votes
5
replies
1.7k
views
how to sort the rows of a file as a matrix?
linux
updated 23 months ago by 45k • written 4.2 years ago by • 0
2
votes
2
replies
1.9k
views
WGCNA - GTEx RNASeq - Help choosing a soft power
WGCNA RNA-Seq GTEx
4.2 years ago by Branden • 0
0
votes
0
replies
453
views
How to deal with fractional number for enrichment analysis
protein analysis enrichment
4.2 years ago by Cancan • 0
0
votes
2
replies
1.9k
views
Normalization/Scaling with sctransform in RStudio of scRNASeq data
vst normalization sctransform scRNASeq scaling
4.2 years ago by ConfusedSheep ▴ 10
1
vote
4
replies
2.4k
views
How to view if a gene is protein-coding?
genetics protein-coding genes
updated 4.2 years ago by ★ 1.7k • written 4.2 years ago by ▴ 20
2
votes
6
replies
2.0k
views
IMPUTE2 minimal number of SNPs per chunk
impute gwas
updated 4.2 years ago by 4.8k • written 4.2 years ago by ▴ 420
0
votes
1
reply
909
views
IMPUTE2 limit to only one population of 1000G Reference
GWAS impute 1000g
updated 4.2 years ago by 4.8k • written 4.2 years ago by ▴ 420
1
vote
3
replies
1.4k
views
SortSam Error after BWA alignment
alignment mappingquality picard sortsam bwa
4.1 years ago by loy_loy ▴ 10
2
votes
12
replies
7.6k
views
Confused with 2 SRA runs for one sample
runs Illumina RNASeq sra
4.2 years ago by ConfusedSheep ▴ 10
0
votes
2
replies
1.5k
views
Unicycler error not enough memory available
assembly unicycler memory
updated 4.2 years ago by ★ 30k • written 4.2 years ago by ▴ 170
0
votes
3
replies
4.4k
views
PubChem CID in ChEMBL
ChEMBL PubChem
updated 4.2 years ago by • 0 • written 6.4 years ago by • 0
0
votes
2
replies
905
views
DESeq2 no replicates analysis with a design value of ~1 generates only positive log2foldchange
DESeq2 Log2FoldChange
4.2 years ago by BIN • 0
0
votes
6
replies
1.7k
views
extracting only one sex from gnomad genome v.3.1 file
gnomad
4.2 years ago by storm1907 ▴ 30
4
votes
0
replies
882
views
Herald: The Biostar Herald for Friday, July 02, 2021
herald
updated 4.2 years ago by 20 • written 4.2 years ago by 3.6k
1
vote
7
replies
16k
views
hisat2-align exited with value 1
alignment RNA-Seq rna-seq
updated 4.2 years ago by • 0 • written 6.5 years ago by • 0
1
vote
4
replies
1.2k
views
Pseudocode for gapped BLAST seed extension
Pseudocode smith-waterman seed extend BLAST
updated 4.2 years ago by 153k • written 4.2 years ago by ▴ 10
6
votes
4
replies
1.5k
views
RNA-seq normalisation
normalisation RNAseq
4.2 years ago by raavi21198 ▴ 20
0
votes
0
replies
492
views
Calculate of Total Hip BMD
Hip BMD
4.2 years ago by Yong ▴ 10
1
vote
1
reply
907
views
Identify the potential TF involved in the regulation of DEGs
Transcription factors gene list R
updated 4.2 years ago by ★ 2.2k • written 4.2 years ago by ▴ 30
0
votes
0
replies
744
views
Job: Postdoctoral Associate in statistical geneticist . Nantes/France
france nantes postdoc
4.2 years ago by Pierre Lindenbaum 166k
0
votes
1
reply
989
views
Rarefy metagenomic adatasets for taxonomic profiling using MetaPhlAn3
metagenomics Rarefy MetaPhaln3 Genomics
updated 4.2 years ago by 3.9k • written 4.2 years ago by • 0
1
vote
3
replies
1.2k
views
Calculates the percent sequenceCalculates the percent sequence identity for a pairwise sequence alignment
pairwise sequence alignment identity
updated 3.8 years ago by 23k • written 4.2 years ago by ▴ 20
0
votes
1
reply
943
views
High-throughput sequence variant analysis: Using BAM or VCF files?
ICGC VCF BAM High-throughput
updated 4.2 years ago by 89k • written 4.2 years ago by ▴ 110
2
votes
4
replies
1.7k
views
Subsetting fastq file based on reads starting with a specific pattern
fastq subset
4.2 years ago by biomon ▴ 60
2
votes
5
replies
3.0k
views
Visualizing the gene network obtained by WGCNA
WGCNA weighted network visualizing
4.2 years ago by seta ★ 1.9k
4
votes
7
replies
4.2k
views
How to move the files from sub folder and sub-sub folders into one other folder?
bash
updated 2.5 years ago by 45k • written 4.2 years ago by ▴ 80
0
votes
0
replies
959
views
Where to find GATK4 ACNV
segmentation CNV ABSOLUTE GATK
4.2 years ago by noona • 0
3
votes
5
replies
1.7k
views
Integration of two TCGA datasets
r RNA-Seq tcga survival
updated 4.2 years ago by 89k • written 4.2 years ago by ▴ 90
121,903 results • Page 620 of 2439
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Tried building a compact sequence format with 4-bit storage
Shift in RNA 3' position, Term-Seq vs RNASeq
Comment: STARlong for pacbio Isoseq reads
Comment: Automatically annotating a feature using a genbank file
Answer: Is this PCA plot correct??
Answer: Is this PCA plot correct??
Comment: Is this PCA plot correct??
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Answer: Tried building a compact sequence format with 4-bit storage by Matthias Zepper 5.1k
Hello Pranava, Thanks for sharing your repository. Devising a new file format is an interesting undertaking and certainly a task with many…
Answer: Gene Ontology Enrichment with LOC gene IDs in Common Carp (Cyprinus carpio) by GenoMax 153k
`LOC` gene ID's are often assigned to uncharacterized genes and you may not get useful information from databases for them, thus they will …
Comment: Whole Genome Sequencing IG regions by GenoMax 153k
> are the calls I am seeing reliable or should I take them with something of a pinch of salt? Not sure what calls you are referring to but…
Comment: RNA-SEQ where only a subset of genes is of interest by piffelpaff • 0
Sorry to revive this ancient thread but I'm currently discussing the same question with some people in my lab and would love to somebody po…
Answer: STARlong for pacbio Isoseq reads by YuZJ • 0
Hello, you may try deSALT (DOI: 10.1186/s13059-019-1895-9, GitHub: ydLiu-HIT/deSALT) or uLTRA (DOI: 10.1093/bioinformatics/btab540, GitHub:…
Comment: Shift in RNA 3' position, Term-Seq vs RNASeq by acvill ▴ 350
Without knowing the details of the Term-seq method, could the 38 nt shift be accounted for by the difference in the position of the ribosom…
Comment: STARlong for pacbio Isoseq reads by Buffo ★ 2.4k
Thanks, I'll give it a try.
Comment: STARlong for pacbio Isoseq reads by GenoMax 153k
You could give `mapPacBio.sh` from BBMap suite a try while you wait for other answers. That works for reads up to 6 kb. BBMap has a new hom…
Comment: STARlong for pacbio Isoseq reads by Buffo ★ 2.4k
The average is 1.8kb. I was planning to post it on GitHub, but it seems like the repository has been unattended for the last months, so I d…
Comment: Getting just fastqc.zip file? by GenoMax 153k
Yes, You can either use it on command line or use the graphical user interface.
Comment: STARlong for pacbio Isoseq reads by GenoMax 153k
What is the average length of your reads? That error sounds like a bug, so you may want to post that on `STAR` repo as an issue. I assume …
Comment: Getting just fastqc.zip file? by pourhangleila95 • 0
I want to perform fastQC on my data.Do you use fastQC software for doing it?
Comment: Whole Genome Sequencing IG regions by 719 • 0
Sorry for the poor wording of the original post, also should say I really appreciate people taking a moment to look at my post. My main con…
Comment: Is total miRNA in EV constant? Implications for library size normalization. by Thomas.H.Hampton ▴ 10
Thanks again for your carefully considered reply. You asked what I am hoping to learn from a DE analysis. Autologous stem cells are well …
Comment: Subsetting before QC in Spatial Transcriptomics by Kent ▴ 30
Hi ATpoint, thank you very much for the helpful insight! I'm still doing some literature reading on this myself, but have you come across a…
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