From e68d2a2b736dc36155262fca2f185af251542804 Mon Sep 17 00:00:00 2001 From: alejandrogzi Date: Fri, 12 Apr 2024 19:00:02 -0500 Subject: [PATCH] README --- README.md | 17 ++++++++++------- 1 file changed, 10 insertions(+), 7 deletions(-) diff --git a/README.md b/README.md index e407a24..3f5d1b2 100644 --- a/README.md +++ b/README.md @@ -30,20 +30,23 @@ Converts - *Canis lupus familiaris* ROS_Cfam_1.0 Ensembl 110 (55,335 transcripts) in 1.20 seconds. - *Gallus galus* bGalGal1 Ensembl 110 (72,689 transcripts) in 1.36 seconds. -> What's new on v.1.9.1 +> What's new on v.1.9.2 > -> - Fixes a recently noted bug with UTR coordinates and first exons in - strand transcripts -> - Improves the readability of the versioning in CL interface -> - Disable automatic UTR annotations (no more five/three_prime_utr). Will be optional in the next release. +> - Adds `--no-gene` flag to only perform conversion without isoforms! +> - Modifies `-i` to be required unless `--no-gene` mode is present. +> - Refactors BedRecord. +> - Isolates CLI as owned mod. ## Usage ``` rust Usage: bed2gtf[EXE] --bed/-b --isoforms/-i --output/-o Arguments: - --bed : a .bed file - --isoforms : a tab-delimited file - --output : path to output file + -b, --bed : a .bed file + -i, --isoforms : a tab-delimited file + -o, --output : path to output file + -g, --gz[=] Compress output file [default: false] [possible values: true, false] + -n, --no-gene[=] Flag to disable gene_id feature [default: false] [possible values: true, false] Options: --help: print help