Nextflow Modules
Showing module(s) with keyword "telomere"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/bam_telomere_estimation | Workflow | telomere telseq telogator2 telomerehunter bam cram | Estimate telomere length and content from aligned reads using telseq, telogator2, and telomerehunter |
| nf-core/custom/summarisetelomereestimation | Process | telomere summary telseq telogator2 telomerehunter | Normalise and combine telomere length and content estimates from telseq, telogator2, and telomerehunter into a unified summary |
| nf-core/fasta_explore_search_plot_tidk | Workflow | genomics telomere repeat search plot | Uses Telomere Identification toolKit (TIDK) to identify the frequency of telomeric repeats along a sliding window for each sequence in the input fasta file. Results are presented in TSV and SVG formats. The user can specify an a priori sequence for identification. Possible a posteriori sequences are also explored and the most frequent sequence is used for identification similar to the a priori sequence. seqkit/seq and seqkit/sort modules are also included to filter out small sequences and sort sequences by length. |
| nf-core/telogator2 | Process | bam cram genomics telomere long-read pacbio nanopore | Allele-specific telomere length estimation and TVR characterization from long reads |
| nf-core/telomerehunter | Process | bam genomics telomere telomerehunter cancer | In silico estimation of telomere content and composition from cancer genomes |
| nf-core/telomerehunter2 | Process | telomere repeats bam single-cell | Estimate telomere content and telomeric variant repeats from indexed BAM sequencing data |
| nf-core/telseq | Process | bam cram genomics samtools telomere telseq | Telseq: a software for calculating telomere length |
| nf-core/tidk/explore | Process | genomics telomere search | `tidk explore` attempts to find the simple telomeric repeat unit in the genome provided. It will report this repeat in its canonical form (e.g. TTAGG -> AACCT). |
| nf-core/tidk/plot | Process | genomics telomere search plot | Plots telomeric repeat frequency against sliding window location using data produced by `tidk/search` |
| nf-core/tidk/search | Process | genomics telomere search | Searches a genome for a telomere string such as TTAGGG |