bioinformatics

bioinformatics

How to combine all chromosomes in a single file

vcftools - installing on MAC

Snakemake: unknown output/input files after splitting by chromosome

Use wildcard on params

RNA-Seq quality control tool looking for number of aligned reads in different genomic regions

How to download gene expression data from NCBI gene database

Cluster position units in fastq file

Analyzing protein sequences with the ProtParam module

Biopython: SeqIO.parse() FileNotFoundError

Input reads are 55 million but only 1 million were used for alignment

How to BLAST against TrEMBL only

Identifying relevant SNPs from a list

Does picard markduplicate toggle PCR duplicate samflag

How do I remove duplicated by position SNPs using PLink?

Is snakemake the right tool to use for handling output mediated workflows

Running bcl2fastq on Windows

Snakemake rules

snakemake manage pair sample and indelrealigner

snakemake how to encode pair analisys

Accepting slightly different inputs to snakemake rule (.fq vs .fq.gz)

PS easy way to color text

How to write rules for software with version specific shell calls? (E.g. Samtools 1.3.1 and 0.1.18)

Adjusting the MAFFT command line algorithm to better account for gaps

Re-numbering residues in PDB file with biopython

BWA can't find the local index file

Why there are different ensembl exon IDs for exactly same chromosome coordinates

Running sequence alignment using biopython

Extract multiple protein sequences from a Protein Data Bank along with Secondary Structure

Fastest way to add Ns to variable length sequences such that they all equal 150bp

Mapping microarray probes

Trying to predict binding to lipopolysaccharide (LPS)

Find TopHat accepted_hits.bam mapped to transcriptome and genome separetly

Converting .fasta files to .gff3 files

Mauve on Ubuntu 16

H-PoPG Haplotyper NullPointerException Error at algorithms.HBOP2Builder

How to convert vcf file to ped file using plink?

Calculate (mean) sequence divergence for many sequences

From the concatenated fasta file, how to find individual range of locations in each protein sequence

How to use SAMtool htslib library to read optional info fields

How to use htslib/samtools to transform SAM/BAM reads?

How to count sequences in a fasta file using Bioperl

ChemSpider refuses to accept the .MOL file I present it

How to get taxonomic specific ids for kingdom, phylum, class, order, family, genus and species from taxid?

Galaxy NGS not displaying installed tools

remove scaffold and other unplaced sequence before mapping?

how comparing PQG with PEG and PQA in Blast Algorithm?

How to get sequence description from gi number through biopython?

Looking at the results of clustering algorithms on Protein Interaction Networks

Different results with MACS2 when Peakcalling with .bed or .bam

Is it possible to have an additional column of % similarity in the BLAST 2.2.26 output file?

Changing the record id in a FASTA file using BioPython

sort fastq file and keep sequences 15-17 bp in length

Beginner GWAS topic: virtual box command line can't find .ped file?

chip-seq alignment with multimach reads

In bioinformatics, what is a singleton?

How to fix both the branch length and topology in MrBayes

Extrapolating variance components from Weir-Fst on Vcftools

how to convert a clusterw .dnd file to image (png) file?

How does Biopython determine the root of a phylogenetic tree?

Multiple sequence alignment. Convert multi-line format to single-line format?

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